• Home
• Tools
  • Tools Overview
  • Query Tools

    
    • QuickSearch
    • QueryBuilder
    • TermLink
    • CytoSearch
    • Interactions Browser
    • ImageBrowse
    • Find A Person
    • Google™ FlyBase
  • Genomic/Map Tools

    
    • BLAST
    • GBrowse
    • CytoSearch
    • Aberrations Maps
    • Chromosome Maps
    • Coordinates Converter
  • Retrieve/Convert

    
    • Batch Download
    • Coordinates Converter
    • ID Converter
  • Data Submission

    
    • Fast-Track Your Paper
    • Submit Personal Comm
    • Add A New Person
    • Update Person Info
  • People

    
    • Find A Person
    • Add A New Person
    • Update Person Info
• Files
  • Files Overview
  • Downloads:
  • Precomputed files
  • Archived data
  • Releases (FTP)
  • Genomes (FTP)
  • AAA data (FTP)
  • Lists:
  • Transposons (Dmel)
  • Transposons (other)
  • Vectors & Constructs
  • Anatomical Terms
  • Map Conversion
• Species
  • Phylogeny
  • Sequenced Species
  • Synteny Table
  • Color Illustrations
  • Abbreviations
• Documents
  • About FlyBase
  • Reference Manual:
  • Sections
  • Contents
  • Nomenclature
  • Release Notes
• Resources
  • All Resources
  • Model Organisms
  • Stock Collections
  • Other links:
  • BDGP
  • DGRC
  • FlyExpress
  • Interactive Fly
  • modENCODE
  • Textpresso for Fly
• News
  • News
  • FlyBase Forum
  • FlyBase Positions
  • Meetings
  • Courses
  • Fly Board
  • White papers
  • Funding
  • bionet.dros
• Help
  • Google™ FlyBase
  • Site Map
  • FAQs
  • FlyBase Guides
  • Video Tutorials
  • Report help
  • New to Flies
  • Pers. comm.
  • Author guidelines
  • Contact FlyBase
• Archives
  • Prior Release
  • Other Archives
  • Coordinate Converter

Gene Dmel\Kdm4A

General Information
Symbol	Dmel\Kdm4A	Species	D. melanogaster
Name	Histone demethylase 4A	Annotation symbol	CG15835
Feature type	protein_coding_gene	FlyBase ID	FBgn0033233
Gene Model Status	Current	Stock availability	6 publicly available
Genomic Location
Chromosome (arm)	2R	Recombination map
Cytogenetic map	43F2-43F2	Sequence location	2R:3,810,280..3,812,488 [-]
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 Histone demethylase 4A is referred to in FlyBase by the symbol Dmel\Kdm4A (CG15835, FBgn0033233). It is a protein_coding_gene from Drosophila melanogaster. There is experimental evidence that it has the molecular function: histone demethylase activity (H3-K36 specific); histone demethylase activity (H3-K9 specific). There is experimental evidence that it is involved in the biological process: histone H3-K36 demethylation; histone H3-K9 demethylation. 11 alleles are reported. The phenotype of these alleles is annotated with: wing. It has 2 annotated transcripts and 2 annotated polypeptides. Protein features are: Transcription factor jumonji; Transcription factor jumonji, JmjN; Transcription factor jumonji/aspartyl beta-hydroxylase. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of high expression to a trough of low expression. Peak expression observed within 00-06 hour embryonic stages. Summary of FlyAtlas Anatomical Expression Data: Expression at moderate levels in the following post-embryonic organs or tissues: adult ovary, adult testis. Comments on Affy2 ProbeSet: ProbeSet 1635774_at completely aligns to an exonic region of the only FlyBase-annotated transcript isoform of Kdm4A. Gene sequence location is 2R:3810280..3812488.
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.
Update Feed	Click the icon below to subscribe to this FlyBase record and receive updates automatically through your feed reader.
FB2012_01	Sequence features HFA06586 BKN25550
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 43F2-43F2   Limits computationally determined from genome sequence between P{lacW}lin19k01207&P{lacW}rnh1k07624 and P{lacW}CSN4k08018&P{lacW}l(2)k08504k08504
Experimentally Determined Cytological Location
Cytogenetic map Notes References
Experimentally Determined Recombination Data
Location
Left of (cM)
Right of (cM)
Notes
Gene Model & Products
Please see the GBrowse view of Dmel\Kdm4A for information on other features To submit a correction to a gene model please use the Contact FlyBase form
Comments on Gene Model
	Gene model reviewed during 5.41
Transcript Data
Annotated Transcripts
Name FlyBase ID RefSeq ID Length (nt) Associated CDS (aa) Kdm4A-RA FBtr0088886  NM_136487   2017   495 Kdm4A-RB FBtr0309844     1999   489
Additional Transcript Data & Comments
Reported size (kB)
Comments
External Data
Crossreferences
Polypeptide Data
Annotated Polypeptides
Name FlyBase ID Predicted MW (kDa) Length (aa) Theoretical pI RefSeq ID GenBank protein Kdm4A-PA   FBpp0087961   57.0   495   7.27     NP_610331   AAF59172 Kdm4A-PB   FBpp0301578   56.2   489   7.49
Additional Polypeptide Data & Comments
Reported size (kDa)
Comments
External Data
Linkouts
Crossreferences	InterPro domains - A database of protein families, domains, and functional sites • Transcription factor jumonji/aspartyl beta-hydroxylase (IPR003347) Transcription factor jumonji, JmjN (IPR003349) Transcription factor jumonji (IPR013129)
Sequences Consistent with the Gene Model
DDBJ / EMBL / GenBank	DNA sequence Protein sequence Name AA816425   AA979119   AE013599 AAF59172   AI512637   AI515787   AI519133   AQ074062   AW943184   AY058636 AAL13865   BH759500   BI215577   BI228370   BI229071   BI356371   BI368689   BI369757   BI481680   BI484722   BI485533   BI485951   BI578143   BI618783   BP559533   BP559534   CO268058   CO268127   CO270861   CO282972   CO299367   CO314395   CO315073   EC076578   EC076932   EC197106   EC199707   EC219899   EC249699
UniProtKB/Swiss-Prot
UniProtKB/TrEMBL	Q9V333
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
External Data
Linkouts
Crossreferences
Expression Data
Transcript Expression
Additional Descriptive Data
Marker for
Subcellular Localization
CV Term
Notes
Polypeptide Expression
Additional Descriptive Data
Marker for
Subcellular Localization
CV Term
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 FBgn0033233    Styles Linear Logarithmic Heatmap    Scales max expr for FBgn0033233 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 high expression to a trough of low expression. 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 FBgn0033233 expression level Developmental Stage   Expression Level embryo 00-02hr    3705 embryo 02-04hr    4871 embryo 04-06hr    2391 embryo 06-08hr    1515 embryo 08-10hr    1597 embryo 10-12hr    950 embryo 12-14hr    984 embryo 14-16hr    1064 embryo 16-18hr    906 embryo 18-20hr    437 embryo 20-22hr    1097 embryo 22-24hr    1038 larva L1    206 larva L2    192 larva L3 12hr old    206 larva L3 puffstage 1-2    261 larva L3 puffstage 3-6    406 larva L3 puffstage 7-9    507 white prepupae new    522 white prepupae 12hr    645 white prepupae 24hr    816 pupae 2d postWPP    530 pupae 3d postWPP    297 pupae 4d postWPP    194 adult male 01day    352 adult male 05day    565 adult male 30day    469 adult female 01day    828 adult female 05day    1790 adult female 30day    1876 Expression Level Scale  None   Extremely low   Very low   Low   Moderate   Moderately high   High  Linear, scaled to Very low expression Developmental Stage   Expression Level embryo 00-02hr  (3705) embryo 02-04hr  (4871) embryo 04-06hr  (2391) embryo 06-08hr  (1515) embryo 08-10hr  (1597) embryo 10-12hr  (950) embryo 12-14hr  (984) embryo 14-16hr  (1064) embryo 16-18hr  (906) embryo 18-20hr  (437) embryo 20-22hr  (1097) embryo 22-24hr  (1038) larva L1  (206) larva L2  (192) larva L3 12hr old  (206) larva L3 puffstage 1-2  (261) larva L3 puffstage 3-6  (406) larva L3 puffstage 7-9  (507) white prepupae new  (522) white prepupae 12hr  (645) white prepupae 24hr  (816) pupae 2d postWPP  (530) pupae 3d postWPP  (297) pupae 4d postWPP  (194) adult male 01day  (352) adult male 05day  (565) adult male 30day  (469) adult female 01day  (828) adult female 05day  (1790) adult female 30day  (1876) Expression Level Scale  None   Extremely low   Very low   Low  Linear, scaled to Moderate expression Developmental Stage   Expression Level embryo 00-02hr  (3705) embryo 02-04hr  (4871) embryo 04-06hr  (2391) embryo 06-08hr  (1515) embryo 08-10hr  (1597) embryo 10-12hr    950 embryo 12-14hr    984 embryo 14-16hr    1064 embryo 16-18hr    906 embryo 18-20hr    437 embryo 20-22hr    1097 embryo 22-24hr    1038 larva L1    206 larva L2    192 larva L3 12hr old    206 larva L3 puffstage 1-2    261 larva L3 puffstage 3-6    406 larva L3 puffstage 7-9    507 white prepupae new    522 white prepupae 12hr    645 white prepupae 24hr    816 pupae 2d postWPP    530 pupae 3d postWPP    297 pupae 4d postWPP    194 adult male 01day    352 adult male 05day    565 adult male 30day    469 adult female 01day    828 adult female 05day  (1790) adult female 30day  (1876) Expression Level Scale  None   Extremely low   Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Developmental Stage   Expression Level embryo 00-02hr    3705 embryo 02-04hr    4871 embryo 04-06hr    2391 embryo 06-08hr    1515 embryo 08-10hr    1597 embryo 10-12hr    950 embryo 12-14hr    984 embryo 14-16hr    1064 embryo 16-18hr    906 embryo 18-20hr    437 embryo 20-22hr    1097 embryo 22-24hr    1038 larva L1    206 larva L2    192 larva L3 12hr old    206 larva L3 puffstage 1-2    261 larva L3 puffstage 3-6    406 larva L3 puffstage 7-9    507 white prepupae new    522 white prepupae 12hr    645 white prepupae 24hr    816 pupae 2d postWPP    530 pupae 3d postWPP    297 pupae 4d postWPP    194 adult male 01day    352 adult male 05day    565 adult male 30day    469 adult female 01day    828 adult female 05day    1790 adult female 30day    1876 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    3705 embryo 02-04hr    4871 embryo 04-06hr    2391 embryo 06-08hr    1515 embryo 08-10hr    1597 embryo 10-12hr    950 embryo 12-14hr    984 embryo 14-16hr    1064 embryo 16-18hr    906 embryo 18-20hr    437 embryo 20-22hr    1097 embryo 22-24hr    1038 larva L1    206 larva L2    192 larva L3 12hr old    206 larva L3 puffstage 1-2    261 larva L3 puffstage 3-6    406 larva L3 puffstage 7-9    507 white prepupae new    522 white prepupae 12hr    645 white prepupae 24hr    816 pupae 2d postWPP    530 pupae 3d postWPP    297 pupae 4d postWPP    194 adult male 01day    352 adult male 05day    565 adult male 30day    469 adult female 01day    828 adult female 05day    1790 adult female 30day    1876 Expression Level Scale  None   Extremely low   Very low   Low   Moderate   Moderately high   High   Very high   Extremely high  log, scaled to maximum FBgn0033233 expression level Developmental Stage   Expression Level embryo 00-02hr    3705 embryo 02-04hr    4871 embryo 04-06hr    2391 embryo 06-08hr    1515 embryo 08-10hr    1597 embryo 10-12hr    950 embryo 12-14hr    984 embryo 14-16hr    1064 embryo 16-18hr    906 embryo 18-20hr    437 embryo 20-22hr    1097 embryo 22-24hr    1038 larva L1    206 larva L2    192 larva L3 12hr old    206 larva L3 puffstage 1-2    261 larva L3 puffstage 3-6    406 larva L3 puffstage 7-9    507 white prepupae new    522 white prepupae 12hr    645 white prepupae 24hr    816 pupae 2d postWPP    530 pupae 3d postWPP    297 pupae 4d postWPP    194 adult male 01day    352 adult male 05day    565 adult male 30day    469 adult female 01day    828 adult female 05day    1790 adult female 30day    1876 Expression Level Scale  None   Extremely low   Very low   Low   Moderate   Moderately high   High   Very high  log, scaled to Very low expression Developmental Stage   Expression Level embryo 00-02hr  (3705) embryo 02-04hr  (4871) embryo 04-06hr  (2391) embryo 06-08hr  (1515) embryo 08-10hr  (1597) embryo 10-12hr  (950) embryo 12-14hr  (984) embryo 14-16hr  (1064) embryo 16-18hr  (906) embryo 18-20hr  (437) embryo 20-22hr  (1097) embryo 22-24hr  (1038) larva L1  (206) larva L2  (192) larva L3 12hr old  (206) larva L3 puffstage 1-2  (261) larva L3 puffstage 3-6  (406) larva L3 puffstage 7-9  (507) white prepupae new  (522) white prepupae 12hr  (645) white prepupae 24hr  (816) pupae 2d postWPP  (530) pupae 3d postWPP  (297) pupae 4d postWPP  (194) adult male 01day  (352) adult male 05day  (565) adult male 30day  (469) adult female 01day  (828) adult female 05day  (1790) adult female 30day  (1876) Expression Level Scale  None   Extremely low   Very low   Low  log, scaled to Moderate expression Developmental Stage   Expression Level embryo 00-02hr  (3705) embryo 02-04hr  (4871) embryo 04-06hr  2391 embryo 06-08hr  1515 embryo 08-10hr  1597 embryo 10-12hr    950 embryo 12-14hr    984 embryo 14-16hr    1064 embryo 16-18hr    906 embryo 18-20hr    437 embryo 20-22hr    1097 embryo 22-24hr    1038 larva L1    206 larva L2    192 larva L3 12hr old    206 larva L3 puffstage 1-2    261 larva L3 puffstage 3-6    406 larva L3 puffstage 7-9    507 white prepupae new    522 white prepupae 12hr    645 white prepupae 24hr    816 pupae 2d postWPP    530 pupae 3d postWPP    297 pupae 4d postWPP    194 adult male 01day    352 adult male 05day    565 adult male 30day    469 adult female 01day    828 adult female 05day  1790 adult female 30day  1876 Expression Level Scale  None   Extremely low   Very low   Low   Moderate   Moderately high  log, scaled to High expression Developmental Stage   Expression Level embryo 00-02hr    3705 embryo 02-04hr    4871 embryo 04-06hr    2391 embryo 06-08hr    1515 embryo 08-10hr    1597 embryo 10-12hr    950 embryo 12-14hr    984 embryo 14-16hr    1064 embryo 16-18hr    906 embryo 18-20hr    437 embryo 20-22hr    1097 embryo 22-24hr    1038 larva L1    206 larva L2    192 larva L3 12hr old    206 larva L3 puffstage 1-2    261 larva L3 puffstage 3-6    406 larva L3 puffstage 7-9    507 white prepupae new    522 white prepupae 12hr    645 white prepupae 24hr    816 pupae 2d postWPP    530 pupae 3d postWPP    297 pupae 4d postWPP    194 adult male 01day    352 adult male 05day    565 adult male 30day    469 adult female 01day    828 adult female 05day    1790 adult female 30day    1876 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    3705 embryo 02-04hr    4871 embryo 04-06hr    2391 embryo 06-08hr    1515 embryo 08-10hr    1597 embryo 10-12hr    950 embryo 12-14hr    984 embryo 14-16hr    1064 embryo 16-18hr    906 embryo 18-20hr    437 embryo 20-22hr    1097 embryo 22-24hr    1038 larva L1    206 larva L2    192 larva L3 12hr old    206 larva L3 puffstage 1-2    261 larva L3 puffstage 3-6    406 larva L3 puffstage 7-9    507 white prepupae new    522 white prepupae 12hr    645 white prepupae 24hr    816 pupae 2d postWPP    530 pupae 3d postWPP    297 pupae 4d postWPP    194 adult male 01day    352 adult male 05day    565 adult male 30day    469 adult female 01day    828 adult female 05day    1790 adult female 30day    1876 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 FBgn0033233    Styles Linear Logarithmic Heatmap Back-to-back    Scales max expr for FBgn0033233 Moderate expression bin max High level expression bin max Very high expression bin max Summary of FlyAtlas Anatomical Expression Data: Expression at moderate levels in the following post-embryonic organs or tissues: adult ovary, adult testis. [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 FBgn0033233 expression level Tissue   Expression Level Larval Central Nervous System    76.825 Larval Midgut no informative data Larval Hindgut    36.8 Larval Malpighian Tubules    42.6 Larval Fat Body no informative data Larval Salivary Gland    55.9 Larval Trachea    65.25 Larval Carcass no informative data Adult Head no informative data Adult Eye    61.375 Adult Brain    54.6 Adult Thoracic-Abdominal Ganglion    45.7 Adult Crop    32.5 Adult Midgut no informative data Adult Hindgut no informative data Adult Malpighian Tubules    48.4 Adult Fat Body no informative data Adult Salivary Gland no informative data Adult Heart    39.35 Adult VirginFemale Spermatheca    53.1 Adult InseminatedFemale Spermatheca    75 Adult Ovary    311.5 Adult Testis    218.9 Adult Male Accessory Gland    89.6 Adult Carcass no informative data Expression Level Scale  None   Low   Moderate  Linear, scaled to Moderate expression Tissue   Expression Level Larval Central Nervous System    76.825 Larval Midgut no informative data Larval Hindgut    36.8 Larval Malpighian Tubules    42.6 Larval Fat Body no informative data Larval Salivary Gland    55.9 Larval Trachea    65.25 Larval Carcass no informative data Adult Head no informative data Adult Eye    61.375 Adult Brain    54.6 Adult Thoracic-Abdominal Ganglion    45.7 Adult Crop    32.5 Adult Midgut no informative data Adult Hindgut no informative data Adult Malpighian Tubules    48.4 Adult Fat Body no informative data Adult Salivary Gland no informative data Adult Heart    39.35 Adult VirginFemale Spermatheca    53.1 Adult InseminatedFemale Spermatheca    75 Adult Ovary    311.5 Adult Testis    218.9 Adult Male Accessory Gland    89.6 Adult Carcass no informative data Expression Level Scale  None   Low   Moderate   High  Linear, scaled to High level expression Tissue   Expression Level Larval Central Nervous System    76.825 Larval Midgut no informative data Larval Hindgut    36.8 Larval Malpighian Tubules    42.6 Larval Fat Body no informative data Larval Salivary Gland    55.9 Larval Trachea    65.25 Larval Carcass no informative data Adult Head no informative data Adult Eye    61.375 Adult Brain    54.6 Adult Thoracic-Abdominal Ganglion    45.7 Adult Crop    32.5 Adult Midgut no informative data Adult Hindgut no informative data Adult Malpighian Tubules    48.4 Adult Fat Body no informative data Adult Salivary Gland no informative data Adult Heart    39.35 Adult VirginFemale Spermatheca    53.1 Adult InseminatedFemale Spermatheca    75 Adult Ovary    311.5 Adult Testis    218.9 Adult Male Accessory Gland    89.6 Adult Carcass no informative data Expression Level Scale  None   Low   Moderate   High   Very high  Linear, scaled to Very high expression Tissue   Expression Level Larval Central Nervous System    76.825 Larval Midgut no informative data Larval Hindgut    36.8 Larval Malpighian Tubules    42.6 Larval Fat Body no informative data Larval Salivary Gland    55.9 Larval Trachea    65.25 Larval Carcass no informative data Adult Head no informative data Adult Eye    61.375 Adult Brain    54.6 Adult Thoracic-Abdominal Ganglion    45.7 Adult Crop    32.5 Adult Midgut no informative data Adult Hindgut no informative data Adult Malpighian Tubules    48.4 Adult Fat Body no informative data Adult Salivary Gland no informative data Adult Heart    39.35 Adult VirginFemale Spermatheca    53.1 Adult InseminatedFemale Spermatheca    75 Adult Ovary    311.5 Adult Testis    218.9 Adult Male Accessory Gland    89.6 Adult Carcass no informative data Expression Level Scale  None   Low   Moderate   High   Very high  log, scaled to maximum FBgn0033233 expression level Tissue   Expression Level Larval Central Nervous System    76.825 Larval Midgut no informative data Larval Hindgut    36.8 Larval Malpighian Tubules    42.6 Larval Fat Body no informative data Larval Salivary Gland    55.9 Larval Trachea    65.25 Larval Carcass no informative data Adult Head no informative data Adult Eye    61.375 Adult Brain    54.6 Adult Thoracic-Abdominal Ganglion    45.7 Adult Crop    32.5 Adult Midgut no informative data Adult Hindgut no informative data Adult Malpighian Tubules    48.4 Adult Fat Body no informative data Adult Salivary Gland no informative data Adult Heart    39.35 Adult VirginFemale Spermatheca    53.1 Adult InseminatedFemale Spermatheca    75 Adult Ovary    311.5 Adult Testis    218.9 Adult Male Accessory Gland    89.6 Adult Carcass no informative data Expression Level Scale  None   Low   Moderate   High  log, scaled to Moderate expression Tissue   Expression Level Larval Central Nervous System    76.825 Larval Midgut no informative data Larval Hindgut    36.8 Larval Malpighian Tubules    42.6 Larval Fat Body no informative data Larval Salivary Gland    55.9 Larval Trachea    65.25 Larval Carcass no informative data Adult Head no informative data Adult Eye    61.375 Adult Brain    54.6 Adult Thoracic-Abdominal Ganglion    45.7 Adult Crop    32.5 Adult Midgut no informative data Adult Hindgut no informative data Adult Malpighian Tubules    48.4 Adult Fat Body no informative data Adult Salivary Gland no informative data Adult Heart    39.35 Adult VirginFemale Spermatheca    53.1 Adult InseminatedFemale Spermatheca    75 Adult Ovary    311.5 Adult Testis    218.9 Adult Male Accessory Gland    89.6 Adult Carcass no informative data Expression Level Scale  None   Low   Moderate   High  log, scaled to High level expression Tissue   Expression Level Larval Central Nervous System    76.825 Larval Midgut no informative data Larval Hindgut    36.8 Larval Malpighian Tubules    42.6 Larval Fat Body no informative data Larval Salivary Gland    55.9 Larval Trachea    65.25 Larval Carcass no informative data Adult Head no informative data Adult Eye    61.375 Adult Brain    54.6 Adult Thoracic-Abdominal Ganglion    45.7 Adult Crop    32.5 Adult Midgut no informative data Adult Hindgut no informative data Adult Malpighian Tubules    48.4 Adult Fat Body no informative data Adult Salivary Gland no informative data Adult Heart    39.35 Adult VirginFemale Spermatheca    53.1 Adult InseminatedFemale Spermatheca    75 Adult Ovary    311.5 Adult Testis    218.9 Adult Male Accessory Gland    89.6 Adult Carcass no informative data Expression Level Scale  None   Low   Moderate   High   Very high  log, scaled to Very high expression Tissue   Expression Level Larval Central Nervous System    76.825 Larval Midgut no informative data Larval Hindgut    36.8 Larval Malpighian Tubules    42.6 Larval Fat Body no informative data Larval Salivary Gland    55.9 Larval Trachea    65.25 Larval Carcass no informative data Adult Head no informative data Adult Eye    61.375 Adult Brain    54.6 Adult Thoracic-Abdominal Ganglion    45.7 Adult Crop    32.5 Adult Midgut no informative data Adult Hindgut no informative data Adult Malpighian Tubules    48.4 Adult Fat Body no informative data Adult Salivary Gland no informative data Adult Heart    39.35 Adult VirginFemale Spermatheca    53.1 Adult InseminatedFemale Spermatheca    75 Adult Ovary    311.5 Adult Testis    218.9 Adult Male Accessory Gland    89.6 Adult Carcass no informative data Expression Level Scale  None   Low   Moderate   High   Very high  Heatmap Tissue   Expression Level Larval Central Nervous System     Larval Midgut no informative data Larval Hindgut     Larval Malpighian Tubules     Larval Fat Body no informative data Larval Salivary Gland     Larval Trachea     Larval Carcass no informative data Adult Head no informative data Adult Eye     Adult Brain     Adult Thoracic-Abdominal Ganglion     Adult Crop     Adult Midgut no informative data Adult Hindgut no informative data Adult Malpighian Tubules     Adult Fat Body no informative data Adult Salivary Gland no informative data Adult Heart     Adult VirginFemale Spermatheca     Adult InseminatedFemale Spermatheca     Adult Ovary     Adult Testis     Adult Male Accessory Gland     Adult Carcass no informative data FlyAtlas Organ/Tissue Expression, larval vs. adult Larval Expression Level Tissue Adult Expression Level   NA  Head    no informative data   NA  Eye    61.375   NA  Brain    54.6   76.825  Central Nervous System    NA   NA  Thoracic-Abdominal Ganglion    45.7   NA  Crop    32.5   no informative data  Midgut    no informative data   36.8  Hindgut    no informative data   42.6  Malpighian Tubules    48.4   no informative data  Fat Body    no informative data   55.9  Salivary Gland    no informative data   NA  Heart    39.35   65.25  Trachea    NA   NA  VirginFemale Spermatheca    53.1   NA  InseminatedFemale Spermatheca    75   NA  Ovary    311.5   NA  Testis    218.9   NA  Male Accessory Gland    89.6   no informative data  Carcass    no informative data 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_17
External Data & Images
Linkouts	FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0033233 FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array • CG15835-RA FlyExpress - Embryonic expression images (BDGP data) • Show all FlyExpress processed images for Kdm4A Stages(s) 1-3 Stages(s) 4-6 Stages(s) 7-8 Stages(s) 9-10 Stages(s) 11-12
Alleles & Phenotypes
Summary of Allele Phenotypes
Lethality Allele viable Kdm4AKG04636 viable, with Scer\GAL4pnr-MD237 Kdm4AGD9133 Other Phenotypes Allele short lived | male limited | recessive Kdm4AKG04636 Phenotype manifest in Allele wing Kdm4AKG04636
Classical Alleles ( 5 )
For All Classical Alleles Show
Allele of Kdm4A Class Mutagen Stocks Known lesion Kdm4AKG04636 hypomorphic allele - molecular evidence P-element activity 1 Yes Kdm4ANP0618 1 -- Kdm4AEP2055 P-element activity 0 -- Kdm4AREV-A P-element activity 0 Yes Kdm4AREV-B P-element activity 0 Yes
Alleles Carried on Transgenic Constructs ( 6 )
For All Alleles Carried on Transgenic Constructs Show
Allele of Kdm4A Class Mutagen Stocks Known lesion Kdm4AGD9133 in vitro construct - RNAi in vitro construct - regulatory fusion 2 Yes Kdm4AHMS01304 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes Kdm4AKK104590 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes Kdm4AScer\UAS.T:Ivir\HA1,T:Zzzz\FLAG in vitro construct - regulatory fusion in vitro construct - coding region fusion 0 Yes Kdm4AScer\UAS.T:Zzzz\FLAG in vitro construct - regulatory fusion in vitro construct - coding region fusion 0 Yes Kdm4AV423A.Scer\UAS.T:Ivir\HA1,T:Zzzz\FLAG in vitro construct - regulatory fusion in vitro construct - coding region fusion in vitro construct - amino acid replacement 0 Yes
Aneuploid Aberrations
Disrupted in	Df(2R)Exel6055 (Ryder, 2004.4.26)
Transgenic Constructs & Insertions
Transgenic Constructs
	Type of construct Name Expression data UAS construct P{KK104590} NA P{TRiP.HMS01304} NA P{UAS-CG15835.Flag} NA P{UAS-Kdm4A.HA.FLAG} NA P{UAS-Kdm4A.V423A.HA.FLAG} NA
Insertions
	Type of insertions Name Expression data insertion of enhancer trap binary system P{GawB}Kdm4ANP0618 No miscellaneous insertions P{SUPor-P}Kdm4AKG04636 NA insertion of mobile activating element P{EP}Kdm4AEP2055 NA
Gene Ontology: Function, Process & Cellular Component ( 6 unique terms )
Terms Based on Experimental Evidence ( 5 terms )
Molecular Function
CV term Evidence References
histone demethylase activity (H3-K9 specific) inferred from mutant phenotype (Lloret-Llinares et al., 2008) histone demethylase activity (H3-K36 specific) inferred from direct assay (Lin et al., 2008) inferred from mutant phenotype (Lloret-Llinares et al., 2008)
Biological Process
CV term Evidence References
histone H3-K9 demethylation inferred from mutant phenotype (Lloret-Llinares et al., 2008) histone H3-K36 demethylation inferred from mutant phenotype (Lloret-Llinares et al., 2008)
Cellular Component
CV term Evidence References
nucleus inferred from direct assay (Lloret-Llinares et al., 2008)
Terms Based on Predictions or Assertions ( 3 terms )
Molecular Function
CV term Evidence References
histone demethylase activity (H3-K36 specific) inferred from sequence or structural similarity with UniProtKB:O75164 (assigned by UniProtKB) (FBrf0198784)
Biological Process
CV term Evidence References
histone demethylation inferred from sequence or structural similarity with UniProtKB:O75164 (assigned by UniProtKB) (FBrf0198784)
Cellular Component
CV term Evidence References
nucleus inferred from sequence or structural similarity with UniProtKB:O75164 (assigned by UniProtKB) (FBrf0198784)
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 Kdm4A allele Gene References
External Data
Linkouts	BioGRID - A database of protein and genetic interactions • 61608 DPiM - DPiM, Drosophila Protein interaction Map • FBgn0033233 DroID - A comprehensive database of gene and protein interactions. • FBgn0033233 InterologFinder Protein-protein interactions (PPI) from both known and predicted PPI data sets. • 35744
Orthologs
Genome-wide drosophilid orthologs	Dana\GF11231 Dere\GG10700 Dgri\GH20585 Dmoj\GI19732 Dper\GL10386 Dpse\GA13980 Dsec\GM20746 Dsim\GD10212 Dvir\GJ18422 Dwil\GK21350 Dyak\GE23530
Curated drosophilid orthologs	Dpse\GA13980
Linkouts	InParanoid A subset of ortholog calls from InParanoid. • CPIJ011492 Culex pipens (mosquito) 97080 Chlamidomonas reinhardtii (green alga) ISCW006964-PA Ixodes scapularis (deer tick) 34223 Ostreococcus tauri (green alga) PP25382 Pristionchus pacificus (nematode) SPAC1002.05c Schizosaccharomyces pombe (fission yeast) 22122 Thalassiosira pseudonana (marine diatom) OrthoDB (Arthropod subset) The hierarchical catalog of eukaryotic orthologs. • FBgn0240707 FBgn0223342 FBgn0205581 FBgn0181987 FBgn0175627 FBgn0074012 FBgn0147996 FBgn0142469 FBgn0128048 FBgn0103005 FBgn0088271
Stocks & Reagents
Stocks Listed in FlyBase ( 6 )
Bloomington	34629 y1 sc* v1; P{TRiP.HMS01304}attP2 13828 y1 w67c23; P{SUPor-P}Kdm4AKG04636
Kyoto	103678 w*; P{GawB}Kdm4ANP0618 / CyO
VDRC	v107868 P{KK104590}VIE-260B v32652 w1118; P{GD9133}v32652 v32650 w1118; P{GD9133}v32650/CyO
Genomic Clones ( 1 )
	BACR26A16 Please Note FlyBase no longer curates genomic clone accessions so this list may not be complete
cDNA Clones ( 32 )
	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	LD33386
Other clones	DPiM_LD33386
cDNA Clones, End Sequenced (ESTs)
BDGP DGC clones	LD01520 LD38566 LD41458 LD44562 RE22126 RE25908 RE26774 RE42501 RE54701 RE56045 RE64273 RE67865 RE68880 RE69315 RE71955 RH49690
Other clones	47350 106347 119475 158314 CK01.118B.C2 CK01.118D.G11 EK090041 EK090226 EK100707 EK161904 EK175155 EK236020 EK238936 FGM321E02
RNAi & Array Information
Linkouts	DRSC - Results from RNAi screens. • FBgn0033233 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 35744
Antibody Information
Other Information
Discoverer
Etymology
Identification
Relationship to Other Genes
Source for database identity of	Source for identity of: Kdm4A CG15835 (Lin et al., 2008)
Source for database merge of
Additional comments
Other Comments
External Crossreferences & Linkouts
Sequence Crossreferences
	RefSeq (Transcripts) • NM_136487 RefSeq (Proteins) • NP_610331 DDBJ / EMBL / GenBank • AA979119 AAF59172 AAL13865 AQ074062 AW943184 AY058636 BH759500 Entrez Gene - A searchable database of RefSeq genes. • 35744 UniProtKB/TrEMBL • Q9V333
Other Crossreferences
	InterPro domains - A database of protein families, domains, and functional sites • Transcription factor jumonji/aspartyl beta-hydroxylase (IPR003347) Transcription factor jumonji, JmjN (IPR003349) Transcription factor jumonji (IPR013129)
Linkouts
	BioGRID - A database of protein and genetic interactions • 61608 DPiM - DPiM, Drosophila Protein interaction Map • FBgn0033233 DroID - A comprehensive database of gene and protein interactions. • FBgn0033233 DRSC - Results from RNAi screens. • FBgn0033233 FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0033233 FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array • CG15835-RA FlyMine - Integrated genomics database for Drosophila, Anopheles, and C.elegans • FBgn0033233 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 35744 InParanoid A subset of ortholog calls from InParanoid. • CPIJ011492 Culex pipens (mosquito) 97080 Chlamidomonas reinhardtii (green alga) ISCW006964-PA Ixodes scapularis (deer tick) 34223 Ostreococcus tauri (green alga) PP25382 Pristionchus pacificus (nematode) SPAC1002.05c Schizosaccharomyces pombe (fission yeast) 22122 Thalassiosira pseudonana (marine diatom) InterologFinder Protein-protein interactions (PPI) from both known and predicted PPI data sets. • 35744 modMine - Data generated by the modENCODE project. • FBgn0033233 OrthoDB (Arthropod subset) The hierarchical catalog of eukaryotic orthologs. • FBgn0240707 FBgn0223342 FBgn0205581 FBgn0181987 FBgn0175627 FBgn0074012 FBgn0147996 FBgn0142469 FBgn0128048 FBgn0103005 FBgn0088271
Synonyms & Secondary IDs ( 5 )
Reported As
Symbol Synonym	CG15835 (Lloret-Llinares et al., 2008, Curtis et al., 2011, Lin et al., 2008, Klose et al., 2006, FBrf0198784, Keleman et al., 2009.8.5, Haussmann et al., 2008, Lorbeck et al., 2010, Ni et al., 2010.12.1) dJMJD2(1) (Lloret-Llinares et al., 2008) dKDM4A (Lin et al., 2008) Kdm4A (Lorbeck et al., 2010)
Name Synonym	CG15835   Histone demethylase 4A
Secondary FlyBase IDs
References ( 19 )
Research paper	Curtis et al., 2011, Dev. Biol. 350(2): 534--547 Histone lysine demethylases function as co-repressors of SWI/SNF remodeling activities during Drosophila wing development. [FBrf0212876] Lorbeck et al., 2010, Gene 450(1-2): 8--17 The histone demethylase Dmel\Kdm4A controls genes required for life span and male-specific sex determination in Drosophila. [FBrf0209540] Haussmann et al., 2008, Genome Biol. 9(4): R73 Erect wing regulates synaptic growth in Drosophila by integration of multiple signaling pathways. [FBrf0209726] Lin et al., 2008, Mol. Cell 32(5): 696--706 Heterochromatin Protein 1a Stimulates Histone H3 Lysine 36 Demethylation by the Drosophila KDM4A Demethylase. [FBrf0206348] Lloret-Llinares et al., 2008, Nucleic Acids Res. 36(9): 2852--2863 Characterization of Drosophila melanogaster JmjC+N histone demethylases. [FBrf0205147]
Supplementary material	The modENCODE Consortium, 2010, Science 330(6012): DataS14: Gene co-expression clusters. [FBrf0213979] Mummery-Widmer et al., 2009, Nature 458(7241): Supplementary Table 2 - Genome-wide bristle screen results. [FBrf0214518] Giot et al., 2003, Science 302(5651): Tables S1 to S7. [FBrf0166452]
Review	Klose et al., 2006, Nature Rev. Genet. 7(9): 715--727 JmjC-domain-containing proteins and histone demethylation. [FBrf0195283]
Personal communication to FlyBase	Ni et al., 2010.12.1, A genome-scale shRNA resource for transgenic RNAi in Drosophila. A genome-scale shRNA resource for transgenic RNAi in Drosophila. [FBrf0212437] Keleman et al., 2009.8.5, RNAi-phiC31 construct and insertion data submitted by the Vienna Drosophila RNAi Center RNAi-phiC31 construct and insertion data submitted by the Vienna Drosophila RNAi Center [FBrf0208510] Dickson et al., 2007.7.18, RNAi construct and insertion data submitted by the Vienna Drosophila RNAi Center RNAi construct and insertion data submitted by the Vienna Drosophila RNAi Center [FBrf0200327] Ryder, 2004.4.26, Exelixis CG deletion data. Exelixis CG deletion data. [FBrf0184335]
FlyBase analysis	FlyBase Curators, 2008, Insertion identifiers and alleles based on genomic location of insertions with respect to gene annotations. Insertion identifiers and alleles based on genomic location of insertions with respect to gene annotations. [FBrf0202955] FlyBase, 1992-, FlyBase curation FlyBase curation. [FBrf0105495]
Protein sequence record	Probable JmjC domain-containing histone demethylation protein 3A (EC 1.14.11.-). [FBrf0198784]
Computer file	Gene Disruption Project members, 2001-, [title not yet available] [title not yet available] [FBrf0132177] BDGP Project Members, 2000-, Berkeley Drosophila Genome Project. Berkeley Drosophila Genome Project. [FBrf0125078]
Curated genome annotation	Li, 1999.11, [Annotations performed at the Celera Jamboreee.] [Annotations performed at the Celera Jamboreee.] [FBrf0126682]