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Gene Dmel\ind

General Information
Symbol	Dmel\ind	Species	D. melanogaster
Name	intermediate neuroblasts defective	Annotation symbol	CG11551
Feature type	protein_coding_gene	FlyBase ID	FBgn0025776
Gene Model Status	Current	Stock availability	3 publicly available
Genomic Location
Chromosome (arm)	3L	Recombination map
Cytogenetic map	71B2-71B2	Sequence location	3L:15,035,894..15,037,177 [-]
Genomic Maps Select View:Gene Models/EvidenceExpression/RegulationMegaViewGene Disruptions, Stocks and Reagents modENCODE GBrowse	Decorated FastA GenBankGFF Gene region Extended Gene region CDSIntronsExonsTranslationsTranscripts3' UTR5' UTR
Summary Information
Automatically generated summary See sections below for more information	The gene intermediate neuroblasts defective is referred to in FlyBase by the symbol Dmel\ind (CG11551, FBgn0025776). It is a protein_coding_gene from Drosophila melanogaster. There is experimental evidence that it has the molecular function: sequence-specific DNA binding transcription factor activity; transcription factor binding; sequence-specific DNA binding. There is experimental evidence that it is involved in the biological process: central nervous system development; negative regulation of gene expression; regulation of transcription from RNA polymerase II promoter; negative regulation of transcription from RNA polymerase II promoter. 20 alleles are reported. The phenotypes of these alleles are annotated with: RP2 neuron; neuroblast of ventral nerve cord primordium; intermediate ventral neurectoderm. It has one annotated transcript and one annotated polypeptide. Protein features are: Homeobox; Homeobox, conserved site; Homeobox, eukaryotic; Homeodomain-like; Homeodomain-related. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of moderately high expression to a trough of no expression detected. Peak expression observed within 00-06 hour embryonic stages. Summary of FlyAtlas Anatomical Expression Data: Little or no expression detected in any larval or adult organs/tissues. Comments on Affy2 ProbeSet: ProbeSet 1631250_at completely aligns to an exonic region of the only FlyBase-annotated transcript isoform of ind. Gene sequence location is 3L:15035894..15037177.
External Summaries
Recent Updates
Description	What does this section display? This section contains items that were added to this record for each release. It currently only tracks new links between this FlyBase report and other FlyBase data classes (e.g. genes, references, stocks) or controlled vocabulary terms (e.g. GO, anatomy terms). What does this section not display? This section does not currently display links that were removed or gene model changes.
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FB2012_01	References Meyer et al., 2010, Insect Biochem. Mol. Biol. 40(11): 814--823 Sequence features BKN26743 HFA11355 Controlled Vocabulary Terms negative regulation of gene expression
FB2011_10
All updates	Click here to see a list of all updates to this record from FB2010_08 and on.
Detailed Mapping Data
FlyBase Computed Cytological Location
Cytogenetic map Evidence for location 71B2-71B2   Limits computationally determined from genome sequence between P{PZ}l(3)rO220rO220 and P{lacW}cp309s2172&P{lacW}l(3)j2A2j2A2
Experimentally Determined Cytological Location
Cytogenetic map Notes References 71A-71A     (Weiss, 1998.9.30) 71A-71A     (Weiss, 1998.10.1) 71A-71A   (determined by in situ hybridisation)   (Weiss et al., 1998)
Experimentally Determined Recombination Data
Location
Left of (cM)
Right of (cM)
Notes
Gene Model & Products
Please see the GBrowse view of Dmel\ind for information on other features To submit a correction to a gene model please use the Contact FlyBase form
Comments on Gene Model
Transcript Data
Annotated Transcripts
Name FlyBase ID RefSeq ID Length (nt) Associated CDS (aa) ind-RA FBtr0075668  NM_206365   1284   391
Additional Transcript Data & Comments
Reported size (kB)	1.3 (northern blot) (Weiss et al., 1998)
Comments
External Data
Crossreferences
Polypeptide Data
Annotated Polypeptides
Name FlyBase ID Predicted MW (kDa) Length (aa) Theoretical pI RefSeq ID GenBank protein ind-PA   FBpp0075421   42.5   391   9.83     NP_996087   AAS65004
Additional Polypeptide Data & Comments
Reported size (kDa)	320 (aa) (Weiss et al., 1998)
Comments
External Data
Linkouts
Crossreferences	InterPro domains - A database of protein families, domains, and functional sites • Homeobox, conserved site (IPR017970) Homeobox (IPR001356) Homeodomain-like (IPR009057) Homeodomain-related (IPR012287) Homeobox, eukaryotic (IPR020479)
Sequences Consistent with the Gene Model
DDBJ / EMBL / GenBank	DNA sequence Protein sequence Name AE014296 AAS65004   AF095926 AAC97116   AF096297   AF363232 AAK77133   BI615338   BI629462   BT029146   EC237130
UniProtKB/Swiss-Prot
UniProtKB/TrEMBL	O96620 Q7KUL4 Q963L0
Mapped Features
Mapped Features have been reorganized, please see this article for details. Additional mapped features and mutations can be found on GBrowse or related reports. Type Symbol & Location Additional Notes References protein binding site FBsf0000160416 3L:15,033,635..15,033,650 bound_moiety=vnd-XP evidence=experimental (Weiss et al., 1998, Bergman et al., 2004) protein binding site FBsf0000160417 3L:15,033,662..15,033,668 bound_moiety=vnd-XP evidence=experimental (Bergman et al., 2004, Weiss et al., 1998) protein binding site FBsf0000160418 3L:15,033,613..15,033,619 bound_moiety=vnd-XP evidence=experimental (Bergman et al., 2004, Weiss et al., 1998)
External Data
Linkouts
Crossreferences
Expression Data
Transcript Expression
in situ Stage Tissue/Position (including subcellular localization) Reference embryonic stage 5 -- 8   neuroblast of ventral nerve cord primordium   (Stathopoulos and Levine, 2005) embryonic stage 5 -- 9   neuroblast of intermediate ventral neurectoderm   (Weiss et al., 1998) embryonic stage 9 -- 11   tritocerebral neuroblast | subset   (Urbach and Technau, 2003) procephalic neuroblast | subset   (Urbach and Technau, 2003) ventral neurogenic region & embryonic intercalary segment | medial & restricted   (Urbach and Technau, 2003) protocerebral neuroblast | subset   (Urbach and Technau, 2003) ventral neurogenic region & embryonic antennal segment | medial & restricted   (Urbach and Technau, 2003) ventral neurogenic region & embryonic ocular segment | medial & restricted   (Urbach and Technau, 2003) deuterocerebral neuroblast | subset   (Urbach and Technau, 2003) embryonic stage 11   neuroblast of visual primordium   (Chang et al., 2001) northern blot Stage Tissue/Position (including subcellular localization) Reference embryonic stage 5 -- 8   ventral neurogenic region | restricted   (Weiss et al., 1998) embryonic stage 5 -- 12     (Weiss et al., 1998) Comment:reference states 2-8 hr AEL embryonic stage 8   stage 1 neuroblast | subset   (Weiss et al., 1998) Comment:late embryonic stage 8 embryonic stage 9   neuroblast NB3-2   (Weiss et al., 1998) neuroblast NB5-3   (Weiss et al., 1998) neuroblast NB7-2   (Weiss et al., 1998) neuroblast NB4-2   (Weiss et al., 1998) embryonic stage 9 -- 11   neuroblast NB6-2   (Weiss et al., 1998) neuroblast | subset   (Weiss et al., 1998)
Additional Descriptive Data
	Expression in procephalic neuroblasts stage 9-11: tritocerebrum - d1-3; deuterocerebrum - d1; protocerebrum - cd7, cd13, pd6, pd13 (Urbach and Technau, 2003) ind transcript is detecdted in a relatively restricted intermediate region in the procephalic neuroectoderm dorsal to vnd expressing regions and in the neuroblasts that arise from these regions. (Urbach and Technau, 2003) ind transcript is expressed in intermediate column neurectoderm and neuroblasts. The transcript is first detected in cellular blastoderm embryos in two parallel lateral columns 5 cells wide. During gastrulation, expression narrows to columns only 2 cells wide; the columns are just dorsal to vnd expressing cells, and will become the intermediate column of neurectoderm. At late stage 8, expression is detected in the intermediate column neurectoderm, and in stage 1 neuroblasts derived from the intermediate column. By stage 9, ind is no longer detected in the neurectoderm, but is found in all intermediate column neuroblasts. By stage 11, expression is detected only in one intermediate column neuroblast, NB6-2. No expression is detected after stage 11 of embryogenesis. (Weiss et al., 1998)
Marker for
Subcellular Localization
CV Term
Notes
Polypeptide Expression
immunolocalization Stage Tissue/Position (including subcellular localization) Reference embryonic stage 5 -- 8   ventral neurogenic region | restricted   (Weiss et al., 1998) embryonic stage 8 -- 9   intermediate ventral neurectoderm   (Weiss et al., 1998) embryonic stage 8 -- 13   neuroblast | subset   (Weiss et al., 1998)
Additional Descriptive Data
	ind protein and transcript expression are similar, but ind protein persists longer than the transcript. ind protein is detected in intermediate column neurectoderm and neuroblasts. ind protein expressing cells are adjacent to vnd protein expressing cells. ind protein is still detected at stage 13 in intermediate column neuroblasts. (Weiss et al., 1998)
Marker for
Subcellular Localization
CV Term	nucleus (Weiss et al., 1998)
Notes
High-Throughput Expression Data
or
See Gelbart and Emmert, 2010.10.13 for analysis details and data files for all genes. modENCODE Temporal Expression Data for FBgn0025776    Styles Linear Logarithmic Heatmap    Scales max expr for FBgn0025776 Very low expression bin max Moderate expression bin max High expression bin max Extremely high expression bin max Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of moderately high expression to a trough of no expression detected. Peak expression observed within 00-06 hour embryonic stages. [download data (TSV)] Guide to modENCODE expression level colors   No expression (0 - 0)   Extremely low expression (1 - 10)   Very low expression (11 - 100)   Low expression (101 - 400)   Moderate expression (401 - 1400)   Moderately high expression (1401 - 4000)   High expression (4001 - 10000)   Very high expression (10001 - 100000)   Extremely high expression (100001 - 2000000) Linear, scaled to maximum FBgn0025776 expression level Developmental Stage   Expression Level embryo 00-02hr    25 embryo 02-04hr    664 embryo 04-06hr    1874 embryo 06-08hr    839 embryo 08-10hr    412 embryo 10-12hr    233 embryo 12-14hr    145 embryo 14-16hr    58 embryo 16-18hr    27 embryo 18-20hr    42 embryo 20-22hr    23 embryo 22-24hr    31 larva L1    8 larva L2    2 larva L3 12hr old    11 larva L3 puffstage 1-2    6 larva L3 puffstage 3-6    14 larva L3 puffstage 7-9    10 white prepupae new    7 white prepupae 12hr    45 white prepupae 24hr    45 pupae 2d postWPP    21 pupae 3d postWPP    2 pupae 4d postWPP    7 adult male 01day    4 adult male 05day    5 adult male 30day    13 adult female 01day    1 adult female 05day    1 adult female 30day    0 Expression Level Scale  None   Extremely low   Very low   Low   Moderate   Moderately high  Linear, scaled to Very low expression Developmental Stage   Expression Level embryo 00-02hr    25 embryo 02-04hr  (664) embryo 04-06hr  (1874) embryo 06-08hr  (839) embryo 08-10hr  (412) embryo 10-12hr  (233) embryo 12-14hr  (145) embryo 14-16hr    58 embryo 16-18hr    27 embryo 18-20hr    42 embryo 20-22hr    23 embryo 22-24hr    31 larva L1    8 larva L2    2 larva L3 12hr old    11 larva L3 puffstage 1-2    6 larva L3 puffstage 3-6    14 larva L3 puffstage 7-9    10 white prepupae new    7 white prepupae 12hr    45 white prepupae 24hr    45 pupae 2d postWPP    21 pupae 3d postWPP    2 pupae 4d postWPP    7 adult male 01day    4 adult male 05day    5 adult male 30day    13 adult female 01day    1 adult female 05day    1 adult female 30day    0 Expression Level Scale  None   Extremely low   Very low   Low  Linear, scaled to Moderate expression Developmental Stage   Expression Level embryo 00-02hr    25 embryo 02-04hr    664 embryo 04-06hr  (1874) embryo 06-08hr    839 embryo 08-10hr    412 embryo 10-12hr    233 embryo 12-14hr    145 embryo 14-16hr    58 embryo 16-18hr    27 embryo 18-20hr    42 embryo 20-22hr    23 embryo 22-24hr    31 larva L1    8 larva L2    2 larva L3 12hr old    11 larva L3 puffstage 1-2    6 larva L3 puffstage 3-6    14 larva L3 puffstage 7-9    10 white prepupae new    7 white prepupae 12hr    45 white prepupae 24hr    45 pupae 2d postWPP    21 pupae 3d postWPP    2 pupae 4d postWPP    7 adult male 01day    4 adult male 05day    5 adult male 30day    13 adult female 01day    1 adult female 05day    1 adult female 30day    0 Expression Level Scale  None   Extremely low   Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Developmental Stage   Expression Level embryo 00-02hr    25 embryo 02-04hr    664 embryo 04-06hr    1874 embryo 06-08hr    839 embryo 08-10hr    412 embryo 10-12hr    233 embryo 12-14hr    145 embryo 14-16hr    58 embryo 16-18hr    27 embryo 18-20hr    42 embryo 20-22hr    23 embryo 22-24hr    31 larva L1    8 larva L2    2 larva L3 12hr old    11 larva L3 puffstage 1-2    6 larva L3 puffstage 3-6    14 larva L3 puffstage 7-9    10 white prepupae new    7 white prepupae 12hr    45 white prepupae 24hr    45 pupae 2d postWPP    21 pupae 3d postWPP    2 pupae 4d postWPP    7 adult male 01day    4 adult male 05day    5 adult male 30day    13 adult female 01day    1 adult female 05day    1 adult female 30day    0 Expression Level Scale  None   Extremely low   Very low   Low   Moderate   Moderately high   High   Very high  Linear, scaled to Extremely high expression Developmental Stage   Expression Level embryo 00-02hr    25 embryo 02-04hr    664 embryo 04-06hr    1874 embryo 06-08hr    839 embryo 08-10hr    412 embryo 10-12hr    233 embryo 12-14hr    145 embryo 14-16hr    58 embryo 16-18hr    27 embryo 18-20hr    42 embryo 20-22hr    23 embryo 22-24hr    31 larva L1    8 larva L2    2 larva L3 12hr old    11 larva L3 puffstage 1-2    6 larva L3 puffstage 3-6    14 larva L3 puffstage 7-9    10 white prepupae new    7 white prepupae 12hr    45 white prepupae 24hr    45 pupae 2d postWPP    21 pupae 3d postWPP    2 pupae 4d postWPP    7 adult male 01day    4 adult male 05day    5 adult male 30day    13 adult female 01day    1 adult female 05day    1 adult female 30day    0 Expression Level Scale  None   Extremely low   Very low   Low   Moderate   Moderately high   High   Very high   Extremely high  log, scaled to maximum FBgn0025776 expression level Developmental Stage   Expression Level embryo 00-02hr    25 embryo 02-04hr    664 embryo 04-06hr    1874 embryo 06-08hr    839 embryo 08-10hr    412 embryo 10-12hr    233 embryo 12-14hr    145 embryo 14-16hr    58 embryo 16-18hr    27 embryo 18-20hr    42 embryo 20-22hr    23 embryo 22-24hr    31 larva L1    8 larva L2    2 larva L3 12hr old    11 larva L3 puffstage 1-2    6 larva L3 puffstage 3-6    14 larva L3 puffstage 7-9    10 white prepupae new    7 white prepupae 12hr    45 white prepupae 24hr    45 pupae 2d postWPP    21 pupae 3d postWPP    2 pupae 4d postWPP    7 adult male 01day    4 adult male 05day    5 adult male 30day    13 adult female 01day    1 adult female 05day    1 adult female 30day    0 Expression Level Scale  None   Extremely low   Very low   Low   Moderate   Moderately high  log, scaled to Very low expression Developmental Stage   Expression Level embryo 00-02hr    25 embryo 02-04hr  (664) embryo 04-06hr  (1874) embryo 06-08hr  (839) embryo 08-10hr  (412) embryo 10-12hr  (233) embryo 12-14hr  (145) embryo 14-16hr    58 embryo 16-18hr    27 embryo 18-20hr    42 embryo 20-22hr    23 embryo 22-24hr    31 larva L1    8 larva L2    2 larva L3 12hr old    11 larva L3 puffstage 1-2    6 larva L3 puffstage 3-6    14 larva L3 puffstage 7-9    10 white prepupae new    7 white prepupae 12hr    45 white prepupae 24hr    45 pupae 2d postWPP    21 pupae 3d postWPP    2 pupae 4d postWPP    7 adult male 01day    4 adult male 05day    5 adult male 30day    13 adult female 01day    1 adult female 05day    1 adult female 30day    0 Expression Level Scale  None   Extremely low   Very low   Low  log, scaled to Moderate expression Developmental Stage   Expression Level embryo 00-02hr    25 embryo 02-04hr    664 embryo 04-06hr  1874 embryo 06-08hr    839 embryo 08-10hr    412 embryo 10-12hr    233 embryo 12-14hr    145 embryo 14-16hr    58 embryo 16-18hr    27 embryo 18-20hr    42 embryo 20-22hr    23 embryo 22-24hr    31 larva L1    8 larva L2    2 larva L3 12hr old    11 larva L3 puffstage 1-2    6 larva L3 puffstage 3-6    14 larva L3 puffstage 7-9    10 white prepupae new    7 white prepupae 12hr    45 white prepupae 24hr    45 pupae 2d postWPP    21 pupae 3d postWPP    2 pupae 4d postWPP    7 adult male 01day    4 adult male 05day    5 adult male 30day    13 adult female 01day    1 adult female 05day    1 adult female 30day    0 Expression Level Scale  None   Extremely low   Very low   Low   Moderate   Moderately high  log, scaled to High expression Developmental Stage   Expression Level embryo 00-02hr    25 embryo 02-04hr    664 embryo 04-06hr    1874 embryo 06-08hr    839 embryo 08-10hr    412 embryo 10-12hr    233 embryo 12-14hr    145 embryo 14-16hr    58 embryo 16-18hr    27 embryo 18-20hr    42 embryo 20-22hr    23 embryo 22-24hr    31 larva L1    8 larva L2    2 larva L3 12hr old    11 larva L3 puffstage 1-2    6 larva L3 puffstage 3-6    14 larva L3 puffstage 7-9    10 white prepupae new    7 white prepupae 12hr    45 white prepupae 24hr    45 pupae 2d postWPP    21 pupae 3d postWPP    2 pupae 4d postWPP    7 adult male 01day    4 adult male 05day    5 adult male 30day    13 adult female 01day    1 adult female 05day    1 adult female 30day    0 Expression Level Scale  None   Extremely low   Very low   Low   Moderate   Moderately high   High   Very high  log, scaled to Extremely high expression Developmental Stage   Expression Level embryo 00-02hr    25 embryo 02-04hr    664 embryo 04-06hr    1874 embryo 06-08hr    839 embryo 08-10hr    412 embryo 10-12hr    233 embryo 12-14hr    145 embryo 14-16hr    58 embryo 16-18hr    27 embryo 18-20hr    42 embryo 20-22hr    23 embryo 22-24hr    31 larva L1    8 larva L2    2 larva L3 12hr old    11 larva L3 puffstage 1-2    6 larva L3 puffstage 3-6    14 larva L3 puffstage 7-9    10 white prepupae new    7 white prepupae 12hr    45 white prepupae 24hr    45 pupae 2d postWPP    21 pupae 3d postWPP    2 pupae 4d postWPP    7 adult male 01day    4 adult male 05day    5 adult male 30day    13 adult female 01day    1 adult female 05day    1 adult female 30day    0 Expression Level Scale  None   Extremely low   Very low   Low   Moderate   Moderately high   High   Very high   Extremely high  Heatmap Developmental Stage   Expression Level embryo 00-02hr     embryo 02-04hr     embryo 04-06hr     embryo 06-08hr     embryo 08-10hr     embryo 10-12hr     embryo 12-14hr     embryo 14-16hr     embryo 16-18hr     embryo 18-20hr     embryo 20-22hr     embryo 22-24hr     larva L1     larva L2     larva L3 12hr old     larva L3 puffstage 1-2     larva L3 puffstage 3-6     larva L3 puffstage 7-9     white prepupae new     white prepupae 12hr     white prepupae 24hr     pupae 2d postWPP     pupae 3d postWPP     pupae 4d postWPP     adult male 01day     adult male 05day     adult male 30day     adult female 01day     adult female 05day     adult female 30day     FlyAtlas Anatomical Expression Data for FBgn0025776    Styles Linear Logarithmic Heatmap Back-to-back    Scales max expr for FBgn0025776 Moderate expression bin max High level expression bin max Very high expression bin max Summary of FlyAtlas Anatomical Expression Data: Little or no expression detected in any larval or adult organs/tissues. [download data (TSV)] Guide to FlyAtlas expression level colors   No expression (0 - 9.999)   Low expression (10 - 99.999)   Moderate expression (100 - 499.999)   High level expression (500 - 999.999)   Very high expression (1000 - 25000) Linear, scaled to maximum FBgn0025776 expression level Tissue   Expression Level Larval Central Nervous System    18.55 Larval Midgut    5.6 Larval Hindgut    1.3 Larval Malpighian Tubules    4.5 Larval Fat Body    8.6 Larval Salivary Gland no informative data Larval Trachea    3.075 Larval Carcass    4.95 Adult Head    5.5 Adult Eye    3.225 Adult Brain    3.2 Adult Thoracic-Abdominal Ganglion    7.2 Adult Crop    6.5 Adult Midgut    5.1 Adult Hindgut    2.5 Adult Malpighian Tubules    1.5 Adult Fat Body    6.5 Adult Salivary Gland no informative data Adult Heart    1.2 Adult VirginFemale Spermatheca    7.5 Adult InseminatedFemale Spermatheca    3.3 Adult Ovary    1.8 Adult Testis    2.4 Adult Male Accessory Gland no informative data Adult Carcass    3.9 Expression Level Scale  None   Low  Linear, scaled to Moderate expression Tissue   Expression Level Larval Central Nervous System    18.55 Larval Midgut    5.6 Larval Hindgut    1.3 Larval Malpighian Tubules    4.5 Larval Fat Body    8.6 Larval Salivary Gland no informative data Larval Trachea    3.075 Larval Carcass    4.95 Adult Head    5.5 Adult Eye    3.225 Adult Brain    3.2 Adult Thoracic-Abdominal Ganglion    7.2 Adult Crop    6.5 Adult Midgut    5.1 Adult Hindgut    2.5 Adult Malpighian Tubules    1.5 Adult Fat Body    6.5 Adult Salivary Gland no informative data Adult Heart    1.2 Adult VirginFemale Spermatheca    7.5 Adult InseminatedFemale Spermatheca    3.3 Adult Ovary    1.8 Adult Testis    2.4 Adult Male Accessory Gland no informative data Adult Carcass    3.9 Expression Level Scale  None   Low   Moderate   High  Linear, scaled to High level expression Tissue   Expression Level Larval Central Nervous System    18.55 Larval Midgut    5.6 Larval Hindgut    1.3 Larval Malpighian Tubules    4.5 Larval Fat Body    8.6 Larval Salivary Gland no informative data Larval Trachea    3.075 Larval Carcass    4.95 Adult Head    5.5 Adult Eye    3.225 Adult Brain    3.2 Adult Thoracic-Abdominal Ganglion    7.2 Adult Crop    6.5 Adult Midgut    5.1 Adult Hindgut    2.5 Adult Malpighian Tubules    1.5 Adult Fat Body    6.5 Adult Salivary Gland no informative data Adult Heart    1.2 Adult VirginFemale Spermatheca    7.5 Adult InseminatedFemale Spermatheca    3.3 Adult Ovary    1.8 Adult Testis    2.4 Adult Male Accessory Gland no informative data Adult Carcass    3.9 Expression Level Scale  None   Low   Moderate   High   Very high  Linear, scaled to Very high expression Tissue   Expression Level Larval Central Nervous System    18.55 Larval Midgut    5.6 Larval Hindgut    1.3 Larval Malpighian Tubules    4.5 Larval Fat Body    8.6 Larval Salivary Gland no informative data Larval Trachea    3.075 Larval Carcass    4.95 Adult Head    5.5 Adult Eye    3.225 Adult Brain    3.2 Adult Thoracic-Abdominal Ganglion    7.2 Adult Crop    6.5 Adult Midgut    5.1 Adult Hindgut    2.5 Adult Malpighian Tubules    1.5 Adult Fat Body    6.5 Adult Salivary Gland no informative data Adult Heart    1.2 Adult VirginFemale Spermatheca    7.5 Adult InseminatedFemale Spermatheca    3.3 Adult Ovary    1.8 Adult Testis    2.4 Adult Male Accessory Gland no informative data Adult Carcass    3.9 Expression Level Scale  None   Low   Moderate   High   Very high  log, scaled to maximum FBgn0025776 expression level Tissue   Expression Level Larval Central Nervous System    18.55 Larval Midgut    5.6 Larval Hindgut    1.3 Larval Malpighian Tubules    4.5 Larval Fat Body    8.6 Larval Salivary Gland no informative data Larval Trachea    3.075 Larval Carcass    4.95 Adult Head    5.5 Adult Eye    3.225 Adult Brain    3.2 Adult Thoracic-Abdominal Ganglion    7.2 Adult Crop    6.5 Adult Midgut    5.1 Adult Hindgut    2.5 Adult Malpighian Tubules    1.5 Adult Fat Body    6.5 Adult Salivary Gland no informative data Adult Heart    1.2 Adult VirginFemale Spermatheca    7.5 Adult InseminatedFemale Spermatheca    3.3 Adult Ovary    1.8 Adult Testis    2.4 Adult Male Accessory Gland no informative data Adult Carcass    3.9 Expression Level Scale  None   Low  log, scaled to Moderate expression Tissue   Expression Level Larval Central Nervous System    18.55 Larval Midgut    5.6 Larval Hindgut    1.3 Larval Malpighian Tubules    4.5 Larval Fat Body    8.6 Larval Salivary Gland no informative data Larval Trachea    3.075 Larval Carcass    4.95 Adult Head    5.5 Adult Eye    3.225 Adult Brain    3.2 Adult Thoracic-Abdominal Ganglion    7.2 Adult Crop    6.5 Adult Midgut    5.1 Adult Hindgut    2.5 Adult Malpighian Tubules    1.5 Adult Fat Body    6.5 Adult Salivary Gland no informative data Adult Heart    1.2 Adult VirginFemale Spermatheca    7.5 Adult InseminatedFemale Spermatheca    3.3 Adult Ovary    1.8 Adult Testis    2.4 Adult Male Accessory Gland no informative data Adult Carcass    3.9 Expression Level Scale  None   Low   Moderate   High  log, scaled to High level expression Tissue   Expression Level Larval Central Nervous System    18.55 Larval Midgut    5.6 Larval Hindgut    1.3 Larval Malpighian Tubules    4.5 Larval Fat Body    8.6 Larval Salivary Gland no informative data Larval Trachea    3.075 Larval Carcass    4.95 Adult Head    5.5 Adult Eye    3.225 Adult Brain    3.2 Adult Thoracic-Abdominal Ganglion    7.2 Adult Crop    6.5 Adult Midgut    5.1 Adult Hindgut    2.5 Adult Malpighian Tubules    1.5 Adult Fat Body    6.5 Adult Salivary Gland no informative data Adult Heart    1.2 Adult VirginFemale Spermatheca    7.5 Adult InseminatedFemale Spermatheca    3.3 Adult Ovary    1.8 Adult Testis    2.4 Adult Male Accessory Gland no informative data Adult Carcass    3.9 Expression Level Scale  None   Low   Moderate   High   Very high  log, scaled to Very high expression Tissue   Expression Level Larval Central Nervous System    18.55 Larval Midgut    5.6 Larval Hindgut    1.3 Larval Malpighian Tubules    4.5 Larval Fat Body    8.6 Larval Salivary Gland no informative data Larval Trachea    3.075 Larval Carcass    4.95 Adult Head    5.5 Adult Eye    3.225 Adult Brain    3.2 Adult Thoracic-Abdominal Ganglion    7.2 Adult Crop    6.5 Adult Midgut    5.1 Adult Hindgut    2.5 Adult Malpighian Tubules    1.5 Adult Fat Body    6.5 Adult Salivary Gland no informative data Adult Heart    1.2 Adult VirginFemale Spermatheca    7.5 Adult InseminatedFemale Spermatheca    3.3 Adult Ovary    1.8 Adult Testis    2.4 Adult Male Accessory Gland no informative data Adult Carcass    3.9 Expression Level Scale  None   Low   Moderate   High   Very high  Heatmap Tissue   Expression Level Larval Central Nervous System     Larval Midgut     Larval Hindgut     Larval Malpighian Tubules     Larval Fat Body     Larval Salivary Gland no informative data Larval Trachea     Larval Carcass     Adult Head     Adult Eye     Adult Brain     Adult Thoracic-Abdominal Ganglion     Adult Crop     Adult Midgut     Adult Hindgut     Adult Malpighian Tubules     Adult Fat Body     Adult Salivary Gland no informative data Adult Heart     Adult VirginFemale Spermatheca     Adult InseminatedFemale Spermatheca     Adult Ovary     Adult Testis     Adult Male Accessory Gland no informative data Adult Carcass     FlyAtlas Organ/Tissue Expression, larval vs. adult Larval Expression Level Tissue Adult Expression Level   NA  Head    5.5   NA  Eye    3.225   NA  Brain    3.2   18.55  Central Nervous System    NA   NA  Thoracic-Abdominal Ganglion    7.2   NA  Crop    6.5   5.6  Midgut    5.1   1.3  Hindgut    2.5   4.5  Malpighian Tubules    1.5   8.6  Fat Body    6.5   no informative data  Salivary Gland    no informative data   NA  Heart    1.2   3.075  Trachea    NA   NA  VirginFemale Spermatheca    7.5   NA  InseminatedFemale Spermatheca    3.3   NA  Ovary    1.8   NA  Testis    2.4   NA  Male Accessory Gland    no informative data   4.95  Carcass    3.9 modENCODE Temporal Expression Data (Graveley et al., 2011) FlyAtlas Anatomical Expression Data (Chintapalli et al., 2007)
Expression Clusters
	A cluster of genes with similar mRNA expression dynamics across development. (The modENCODE Consortium, 2010) mE2_34_mRNA_expression_cluster_31
External Data & Images
Linkouts	FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0025776 FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array • CT36460
Alleles & Phenotypes
Summary of Allele Phenotypes
Lethality Allele viable, with Scer\GAL4pnr-MD237 indGD15880 Other Phenotypes Allele neuroanatomy defective indunspecified Phenotype manifest in Allele intermediate ventral neurectoderm ind16.2 neuroblast of ventral nerve cord primordium indunspecified RP2 neuron ind16.2 indRR108
Classical Alleles ( 5 )
For All Classical Alleles Show
Allele of ind Class Mutagen Stocks Known lesion ind16.2 P-element activity 0 -- ind4.2 P-element activity 0 -- ind79.3 P-element activity 0 Yes indRR108 ethyl methanesulfonate 0 -- indunspecified 0 --
Alleles Carried on Transgenic Constructs ( 15 )
For All Alleles Carried on Transgenic Constructs Show
Allele of ind Class Mutagen Stocks Known lesion indGD15880 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes indGLV21011 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes indJF03077 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes indHD.eve.DBD.T:Scer\GAL4 in vitro construct - coding region fusion in vitro construct - regulatory fusion 0 Yes indKr FLPase 0 Yes indNT.eve.DBD.T:Scer\GAL4 in vitro construct - coding region fusion in vitro construct - regulatory fusion 0 Yes indP-HD.eve.DBD.T:Scer\GAL4 in vitro construct - coding region fusion in vitro construct - regulatory fusion 0 Yes indPst.eve.DBD.T:Scer\GAL4 in vitro construct - coding region fusion in vitro construct - regulatory fusion 0 Yes indScer\FRT.Kr in vitro construct - regulatory fusion 0 Yes indScer\UAS.cVa in vitro construct - regulatory fusion 0 Yes indScer\UAS.long in vitro construct - regulatory fusion 0 Yes indScer\UAS.short in vitro construct - regulatory fusion 0 Yes indΔC.Scer\UAS in vitro construct - regulatory fusion in vitro construct - site directed mutagenesis 0 Yes indΔEh1.Scer\UAS in vitro construct - regulatory fusion in vitro construct - site directed mutagenesis 0 Yes indΔPst.Scer\UAS in vitro construct - regulatory fusion in vitro construct - site directed mutagenesis 0 Yes
Aneuploid Aberrations
Transgenic Constructs & Insertions
Transgenic Constructs
	Type of construct Name Expression data reporter construct P{ind1.4-eve-lacZ} No P{ind.1.1-eve-lacZ} No P{ind.422-eve-lacZ} No P{ind.484-eve-lacZ} No P{ind.774-eve-lacZ} No P{ind.985-eve-lacZ} No P{ind-lacZ.0.5} No P{ind-lacZ.0.5mut} No P{ind-lacZ.C} No P{ind-lacZ.g3.3} No P{ind-lacZ.GN1.2} No P{ind-lacZ.GN1.6} No P{ind-lacZ.GN1.6m} No P{ind-lacZ.GN4} No UAS construct P{GD15880} NA P{TRiP.GLV21011} NA P{TRiP.JF03077} NA P{UAS-ind.long} NA P{UAS-ind.short} NA P{UAS-ind.V} NA P{UAS-Ind.ΔC} NA P{UAS-ind.ΔEh1} NA P{UAS-Ind.ΔPst} NA characterization construct P{Kruppel(FRT.stop)-ind} NA P{Kruppel(-FRT)-ind} NA P{UAS-Gind} NA P{UAS-IndGsh1.fusion1} NA P{UAS-IndGsh1.fusion2} NA
Insertions
	Type of insertions Name Expression data
Gene Ontology: Function, Process & Cellular Component ( 15 unique terms )
Terms Based on Experimental Evidence ( 7 terms )
Molecular Function
CV term Evidence References
sequence-specific DNA binding inferred from direct assay (Zhao et al., 2007) sequence-specific DNA binding transcription factor activity inferred from direct assay (Zhao et al., 2007) transcription factor binding inferred from physical interaction with D (Zhao et al., 2007)
Biological Process
CV term Evidence References
central nervous system development inferred from mutant phenotype (Weiss et al., 1998) negative regulation of gene expression inferred from mutant phenotype (Weiss et al., 1998, Seibert and Urbach, 2010) negative regulation of transcription from RNA polymerase II promoter inferred from direct assay (Zhao et al., 2007) regulation of transcription from RNA polymerase II promoter inferred from mutant phenotype (Zhao et al., 2007)
Cellular Component ( 0 terms)
Terms Based on Predictions or Assertions ( 10 terms )
Molecular Function
CV term Evidence References
sequence-specific DNA binding transcription factor activity inferred from sequence or structural similarity with EMBL:AY436761 (FlyBase, 1992-)
Biological Process
CV term Evidence References
brain development traceable author statement (Urbach and Technau, 2004) central nervous system development non-traceable author statement (Ball et al., 2004) dorsal/ventral pattern formation traceable author statement (Skeath and Thor, 2003, Urbach and Technau, 2004) ectoderm development traceable author statement (Urbach and Technau, 2004) neuroblast fate determination traceable author statement (Skeath and Thor, 2003) pattern specification process non-traceable author statement (Ball et al., 2004) regulation of transcription, DNA-dependent inferred from sequence or structural similarity with EMBL:AY436761 (FlyBase, 1992-) ventral cord development non-traceable author statement (Stathopoulos and Levine, 2002) traceable author statement (Skeath and Thor, 2003)
Cellular Component
CV term Evidence References
nucleus inferred from sequence or structural similarity with EMBL:AY436761 (FlyBase, 1992-)
Sequence Ontology: Class of Gene
	nuclear_gene   protein_coding_gene
Interactions & Pathways
Summary of Physical Interactions
Protein-protein
Interacting group Assay References
Summary of Genetic Interactions
Interacts with	Please look at the allele data for full details of the genetic interactions ind allele Gene References ind16.2 D (Zhao and Skeath, 2002) SoxN (Buescher et al., 2002) indRR108 D (Zhao and Skeath, 2002)
External Data
Linkouts	BioGRID - A database of protein and genetic interactions • 77823 DroID - A comprehensive database of gene and protein interactions. • FBgn0025776 InterologFinder Protein-protein interactions (PPI) from both known and predicted PPI data sets. • 2768974
Orthologs
Genome-wide drosophilid orthologs	Dana\GF10750 Dere\GG13695 Dgri\GH16676 Dmoj\GI11362 Dper\GL25910 Dpse\GA23649 Dsec\GM24515 Dsim\GD12586 Dvir\GJ11617 Dwil\GK17410 Dyak\GE19990
Curated drosophilid orthologs
Linkouts	InParanoid A subset of ortholog calls from InParanoid. • AAEL004130-PA Aedes aegypti (mosquito) AGAP001560-PA Anopheles gambiae (mosquito) 82982 Branchiostoma floridae (lancelet) BGIBMGA010980-PA Bombyx mori (silk worm) ENSCINP00000002640 Ciona intestinalis (sea squirt) CPIJ009458 Culex pipens (mosquito) ENSCPOP00000005265 Cavia porcellus (guinea pig) RP46196 Caenorhabditis remanei (nematode) ENSDARP00000063600 Danio rerio (zebra fish) ENSDARP00000094305 Danio rerio (zebra fish) ENSECAP00000011138 Equus caballus (horse) ENSGACP00000019990 Gymnopilus aculeatus (mushroom) ENSGALP00000021895 Gallus gallus (chicken) ISCW021083-PA Ixodes scapularis (deer tick) 219968 Lottia gigantea (owl limpet) ENSMMUP00000008418 Macaca mulatta (rhesus monkey) ENSOANP00000007391 Ornithorynchus anatinus (platypus) ENSORLP00000004696 Oryzias latipes (japanese killifish) XP_784486.2 Strongylocentrotus purpuratus (purple sea urchin) 33728 Trichoplax adhaerens (metazoa) NP_001034494.1 Tribolium castaneum (red flour beetle) ENSXETP00000047547 Xenopus tropicalis (frog) OrthoDB (Arthropod subset) The hierarchical catalog of eukaryotic orthologs. • PB11541 NV14038 LH12709 ISCW008920 FBgn0219409 FBgn0198872 FBgn0184313 FBgn0179378 FBgn0245049 FBgn0163494 FBgn0134123 FBgn0124147 FBgn0105958 FBgn0087790 CPIJ009458 BGIBMGA010980 ACYPI43755 GB14802 AGAP001560 AAEL004130 PHUM434790 GLEAN_06888
Stocks & Reagents
Stocks Listed in FlyBase ( 3 )
Bloomington	28662 y1 v1; P{TRiP.JF03077}attP2 35646 y1 sc* v1; P{TRiP.GLV21011}attP2
VDRC	v48368 w1118 P{GD15880}v48368
Genomic Clones ( 2 )
	BACR01H12 BACR03G06 Please Note FlyBase no longer curates genomic clone accessions so this list may not be complete
cDNA Clones ( 4 )
	Please Note This section lists cDNAs and ESTs that fall within the genomic extent of the gene model, which may include cDNAs and ESTs of genes within introns, or of overlapping genes. Please see GBrowse for alignment of the cDNAs and ESTs to the gene model.
cDNA Clones, Fully Sequenced
BDGP DGC clones
Other clones	RT01026
cDNA Clones, End Sequenced (ESTs)
BDGP DGC clones	RH58336
Other clones	106377 RH44945
RNAi & Array Information
Linkouts	DRSC - Results from RNAi screens. • FBgn0025776 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 2768974
Antibody Information
	monoclonal, polyclonal (Weiss et al., 1998)
Other Information
Discoverer
Etymology
Identification
Relationship to Other Genes
Source for database identity of
Source for database merge of
Additional comments
Other Comments
	RNAi generated by PCR using primers directed to this gene causes a cell growth and viability phenotype when assayed in Kc167 and S2R+ cells. (Boutros et al., 2004) Annotation CG11551 restored for release 3.2 of the genome annotation. (FlyBase Genome Annotators, 2004) Annotation CG11551 was eliminated in release 3 of the genome annotation, October 2002. (FlyBase Genome Annotators, 2002-2003) ind is essential for the development of the intermediate column of neuroblasts in the embryonic central nervous system. (Weiss et al., 1998)
External Crossreferences & Linkouts
Sequence Crossreferences
	RefSeq (Transcripts) • NM_206365 RefSeq (Proteins) • NP_996087 DDBJ / EMBL / GenBank • AAC97116 AAK77133 AAS65004 AF095926 AF096297 AF363232 Entrez Gene - A searchable database of RefSeq genes. • 2768974 UniProtKB/TrEMBL • O96620 Q7KUL4 Q963L0
Other Crossreferences
	InterPro domains - A database of protein families, domains, and functional sites • Homeobox, conserved site (IPR017970) Homeobox (IPR001356) Homeodomain-like (IPR009057) Homeodomain-related (IPR012287) Homeobox, eukaryotic (IPR020479)
Linkouts
	BioGRID - A database of protein and genetic interactions • 77823 DroID - A comprehensive database of gene and protein interactions. • FBgn0025776 DRSC - Results from RNAi screens. • FBgn0025776 FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0025776 FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array • CT36460 FlyMine - Integrated genomics database for Drosophila, Anopheles, and C.elegans • FBgn0025776 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 2768974 InParanoid A subset of ortholog calls from InParanoid. • AAEL004130-PA Aedes aegypti (mosquito) AGAP001560-PA Anopheles gambiae (mosquito) 82982 Branchiostoma floridae (lancelet) BGIBMGA010980-PA Bombyx mori (silk worm) ENSCINP00000002640 Ciona intestinalis (sea squirt) CPIJ009458 Culex pipens (mosquito) ENSCPOP00000005265 Cavia porcellus (guinea pig) RP46196 Caenorhabditis remanei (nematode) ENSDARP00000063600 Danio rerio (zebra fish) ENSDARP00000094305 Danio rerio (zebra fish) ENSECAP00000011138 Equus caballus (horse) ENSGACP00000019990 Gymnopilus aculeatus (mushroom) ENSGALP00000021895 Gallus gallus (chicken) ISCW021083-PA Ixodes scapularis (deer tick) 219968 Lottia gigantea (owl limpet) ENSMMUP00000008418 Macaca mulatta (rhesus monkey) ENSOANP00000007391 Ornithorynchus anatinus (platypus) ENSORLP00000004696 Oryzias latipes (japanese killifish) XP_784486.2 Strongylocentrotus purpuratus (purple sea urchin) 33728 Trichoplax adhaerens (metazoa) NP_001034494.1 Tribolium castaneum (red flour beetle) ENSXETP00000047547 Xenopus tropicalis (frog) Interactive Fly - A cyberspace guide to Drosophila development and metazoan evolution • /hjmuller/intndf1.htm InterologFinder Protein-protein interactions (PPI) from both known and predicted PPI data sets. • 2768974 modMine - Data generated by the modENCODE project. • FBgn0025776 OrthoDB (Arthropod subset) The hierarchical catalog of eukaryotic orthologs. • PB11541 NV14038 LH12709 ISCW008920 FBgn0219409 FBgn0198872 FBgn0184313 FBgn0179378 FBgn0245049 FBgn0163494 FBgn0134123 FBgn0124147 FBgn0105958 FBgn0087790 CPIJ009458 BGIBMGA010980 ACYPI43755 GB14802 AGAP001560 AAEL004130 PHUM434790 GLEAN_06888 REDfly - A database of transcriptional regulatory elements. • FBgn0025776
Synonyms & Secondary IDs ( 6 )
Reported As
Symbol Synonym	CG11551 (Perkins et al., 2009, Ni et al., 2011.7.19) ind (Urbach et al., 2006, Ohlen et al., 2007, Biemar et al., 2006, Seibert et al., 2007, Zeitlinger et al., 2007, Sandmann et al., 2007, Chanut, 2006, Stathopoulos and Levine, 2005, Mizutani et al., 2006, Yu et al., 2005, Seibert et al., 2008, Von Ohlen et al., 2007, Uhler et al., 2007, Von Ohlen et al., 2007, Cowden and Levine, 2003, Zhao et al., 2007, Bonds et al., 2007, Kwong et al., 2008, Von Ohlen et al., 2009, Seibert et al., 2009, Liberman et al., 2009, Ajuria et al., 2011, Seibert and Urbach, 2010, Orian et al., 2007, Helman et al., 2011, Meyer et al., 2010) Ind (Cheesman et al., 2004, McDonald et al., 2003, Von Ohlen and Moses, 2009) ind/Gsx (Seibert et al., 2009)
Name Synonym	intermediate nerve cord defective (Zhao and Skeath, 2001) intermediate neuroblasts defective (Urbach et al., 2006, Biemar et al., 2006, Von Ohlen et al., 2007, Uhler et al., 2007, Von Ohlen et al., 2007, Cowden and Levine, 2003, Bonds et al., 2007, Zhao et al., 2007, Von Ohlen and Moses, 2009, Seibert et al., 2009, Seibert and Urbach, 2010, Helman et al., 2011, Meyer et al., 2010)
Secondary FlyBase IDs
References ( 89 )
Generate a list of	All references relating to this gene ( 89 )
List References by type	Research paper  ( 43 ) Supplementary material  ( 3 ) Review  ( 19 ) Personal communication to FlyBase  ( 4 ) Abstract  ( 12 ) FlyBase analysis  ( 3 ) DNA/RNA sequence record  ( 2 ) Curated genome annotation  ( 1 ) Automatic genome annotation  ( 1 )
Recent research papers ( 4 )
	Ajuria et al., 2011, Development 138(5): 915--924 Capicua DNA-binding sites are general response elements for RTK signaling in Drosophila. [FBrf0212975] Helman et al., 2011, Curr. Biol. 21(13): 1102--1110 Phosphorylation of Groucho Mediates RTK Feedback Inhibition and Prolonged Pathway Target Gene Expression. [FBrf0214255] Meyer et al., 2010, Insect Biochem. Mol. Biol. 40(11): 814--823 The disintegrin and metalloprotease Meltrin from Drosophila forms oligomers via its protein binding domain and is regulated by the homeobox protein VND during embryonic development. [FBrf0211961] Seibert and Urbach, 2010, Dev. Biol. 346(2): 332--345 Role of en and novel interactions between msh, ind, and vnd in dorsoventral patterning of the Drosophila brain and ventral nerve cord. [FBrf0211900] Show all research papers ...
Recent reviews (0)
	All reviews listed in FlyBase were published before 2010 Show reviews ...