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Gene Dmel\snRNA:U7

General Information
Symbol	Dmel\snRNA:U7	Species	D. melanogaster
Name	small nuclear RNA U7	Annotation symbol	CR33504
Feature type	snRNA_gene	FlyBase ID	FBgn0053504
Gene Model Status	Current	Stock availability	2 publicly available
Also Known As	U7, U7 snRNA
Genomic Location
Chromosome (arm)	3L	Recombination map
Cytogenetic map	63E4-63E4	Sequence location	3L:3,593,823..3,593,893 [+]
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 small nuclear RNA U7 is referred to in FlyBase by the symbol Dmel\snRNA:U7 (CR33504, FBgn0053504). It is a snRNA_gene from Drosophila melanogaster. There is experimental evidence that it has the molecular function: mRNA binding. There is experimental evidence that it is involved in the biological process: histone mRNA metabolic process; histone mRNA 3'-end processing; oocyte development. 8 alleles are reported. No phenotypic data is available. It has one annotated transcript. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of low expression to a trough of no expression detected. Peak expression observed during early pupal stages. CAVEAT: These RNA-Seq temporal profiles depend upon RNA-Seq reads that are uniquely placed in the genome. For this reason, genes such as histones, Stellates and many classes of RNA genes that are present in multiple exact or near exact copies in the genome, expression levels may be reported as much lower than their true values. Summary of FlyAtlas Anatomical Expression Data: No FlyAtlas data available because no Affy2 ProbeSet aligns to an exon of snRNA:U7. Comments on Affy2 ProbeSet: No relevant information because no Affy2 ProbeSet aligns to an exon of snRNA:U7. Gene sequence location is 3L:3593823..3593893.
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.
FB2011_10
FB2012_01	Sequence features BKN41511
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 63E4-63E4   Limits computationally determined from genome sequence between P{PZ}kst01318 and P{PZ}Sc205634
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\snRNA:U7 for information on other features To submit a correction to a gene model please use the Contact FlyBase form
Comments on Gene Model
	Sequence of snRNA:U7 from FBrf0161514
Transcript Data
Annotated Transcripts
Name FlyBase ID RefSeq ID Length (nt)   snRNA:U7-RA FBtr0100848  NR_002270   71
Additional Transcript Data & Comments
Reported size (kB)
Comments
External Data
Crossreferences
Sequences Consistent with the Gene Model
DDBJ / EMBL / GenBank	DNA sequence   Name
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
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 FBgn0053504    Styles Linear Logarithmic Heatmap    Scales max expr for FBgn0053504 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 low expression to a trough of no expression detected. Peak expression observed during early pupal stages. CAVEAT: These RNA-Seq temporal profiles depend upon RNA-Seq reads that are uniquely placed in the genome. For this reason, genes such as histones, Stellates and many classes of RNA genes that are present in multiple exact or near exact copies in the genome, expression levels may be reported as much lower than their true values. [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 FBgn0053504 expression level Developmental Stage   Expression Level embryo 00-02hr    0 embryo 02-04hr    15 embryo 04-06hr    13 embryo 06-08hr    8 embryo 08-10hr    0 embryo 10-12hr    4 embryo 12-14hr    13 embryo 14-16hr    0 embryo 16-18hr    0 embryo 18-20hr    3 embryo 20-22hr    0 embryo 22-24hr    0 larva L1    0 larva L2    0 larva L3 12hr old    23 larva L3 puffstage 1-2    0 larva L3 puffstage 3-6    23 larva L3 puffstage 7-9    20 white prepupae new    0 white prepupae 12hr    341 white prepupae 24hr    68 pupae 2d postWPP    4 pupae 3d postWPP    0 pupae 4d postWPP    0 adult male 01day    3 adult male 05day    0 adult male 30day    0 adult female 01day    0 adult female 05day    0 adult female 30day    3 Expression Level Scale  None   Extremely low   Very low   Low  Linear, scaled to Very low expression Developmental Stage   Expression Level embryo 00-02hr    0 embryo 02-04hr    15 embryo 04-06hr    13 embryo 06-08hr    8 embryo 08-10hr    0 embryo 10-12hr    4 embryo 12-14hr    13 embryo 14-16hr    0 embryo 16-18hr    0 embryo 18-20hr    3 embryo 20-22hr    0 embryo 22-24hr    0 larva L1    0 larva L2    0 larva L3 12hr old    23 larva L3 puffstage 1-2    0 larva L3 puffstage 3-6    23 larva L3 puffstage 7-9    20 white prepupae new    0 white prepupae 12hr  (341) white prepupae 24hr    68 pupae 2d postWPP    4 pupae 3d postWPP    0 pupae 4d postWPP    0 adult male 01day    3 adult male 05day    0 adult male 30day    0 adult female 01day    0 adult female 05day    0 adult female 30day    3 Expression Level Scale  None   Extremely low   Very low   Low  Linear, scaled to Moderate expression Developmental Stage   Expression Level embryo 00-02hr    0 embryo 02-04hr    15 embryo 04-06hr    13 embryo 06-08hr    8 embryo 08-10hr    0 embryo 10-12hr    4 embryo 12-14hr    13 embryo 14-16hr    0 embryo 16-18hr    0 embryo 18-20hr    3 embryo 20-22hr    0 embryo 22-24hr    0 larva L1    0 larva L2    0 larva L3 12hr old    23 larva L3 puffstage 1-2    0 larva L3 puffstage 3-6    23 larva L3 puffstage 7-9    20 white prepupae new    0 white prepupae 12hr    341 white prepupae 24hr    68 pupae 2d postWPP    4 pupae 3d postWPP    0 pupae 4d postWPP    0 adult male 01day    3 adult male 05day    0 adult male 30day    0 adult female 01day    0 adult female 05day    0 adult female 30day    3 Expression Level Scale  None   Extremely low   Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Developmental Stage   Expression Level embryo 00-02hr    0 embryo 02-04hr    15 embryo 04-06hr    13 embryo 06-08hr    8 embryo 08-10hr    0 embryo 10-12hr    4 embryo 12-14hr    13 embryo 14-16hr    0 embryo 16-18hr    0 embryo 18-20hr    3 embryo 20-22hr    0 embryo 22-24hr    0 larva L1    0 larva L2    0 larva L3 12hr old    23 larva L3 puffstage 1-2    0 larva L3 puffstage 3-6    23 larva L3 puffstage 7-9    20 white prepupae new    0 white prepupae 12hr    341 white prepupae 24hr    68 pupae 2d postWPP    4 pupae 3d postWPP    0 pupae 4d postWPP    0 adult male 01day    3 adult male 05day    0 adult male 30day    0 adult female 01day    0 adult female 05day    0 adult female 30day    3 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    0 embryo 02-04hr    15 embryo 04-06hr    13 embryo 06-08hr    8 embryo 08-10hr    0 embryo 10-12hr    4 embryo 12-14hr    13 embryo 14-16hr    0 embryo 16-18hr    0 embryo 18-20hr    3 embryo 20-22hr    0 embryo 22-24hr    0 larva L1    0 larva L2    0 larva L3 12hr old    23 larva L3 puffstage 1-2    0 larva L3 puffstage 3-6    23 larva L3 puffstage 7-9    20 white prepupae new    0 white prepupae 12hr    341 white prepupae 24hr    68 pupae 2d postWPP    4 pupae 3d postWPP    0 pupae 4d postWPP    0 adult male 01day    3 adult male 05day    0 adult male 30day    0 adult female 01day    0 adult female 05day    0 adult female 30day    3 Expression Level Scale  None   Extremely low   Very low   Low   Moderate   Moderately high   High   Very high   Extremely high  log, scaled to maximum FBgn0053504 expression level Developmental Stage   Expression Level embryo 00-02hr    0 embryo 02-04hr    15 embryo 04-06hr    13 embryo 06-08hr    8 embryo 08-10hr    0 embryo 10-12hr    4 embryo 12-14hr    13 embryo 14-16hr    0 embryo 16-18hr    0 embryo 18-20hr    3 embryo 20-22hr    0 embryo 22-24hr    0 larva L1    0 larva L2    0 larva L3 12hr old    23 larva L3 puffstage 1-2    0 larva L3 puffstage 3-6    23 larva L3 puffstage 7-9    20 white prepupae new    0 white prepupae 12hr    341 white prepupae 24hr    68 pupae 2d postWPP    4 pupae 3d postWPP    0 pupae 4d postWPP    0 adult male 01day    3 adult male 05day    0 adult male 30day    0 adult female 01day    0 adult female 05day    0 adult female 30day    3 Expression Level Scale  None   Extremely low   Very low   Low   Moderate  log, scaled to Very low expression Developmental Stage   Expression Level embryo 00-02hr    0 embryo 02-04hr    15 embryo 04-06hr    13 embryo 06-08hr    8 embryo 08-10hr    0 embryo 10-12hr    4 embryo 12-14hr    13 embryo 14-16hr    0 embryo 16-18hr    0 embryo 18-20hr    3 embryo 20-22hr    0 embryo 22-24hr    0 larva L1    0 larva L2    0 larva L3 12hr old    23 larva L3 puffstage 1-2    0 larva L3 puffstage 3-6    23 larva L3 puffstage 7-9    20 white prepupae new    0 white prepupae 12hr  (341) white prepupae 24hr    68 pupae 2d postWPP    4 pupae 3d postWPP    0 pupae 4d postWPP    0 adult male 01day    3 adult male 05day    0 adult male 30day    0 adult female 01day    0 adult female 05day    0 adult female 30day    3 Expression Level Scale  None   Extremely low   Very low   Low  log, scaled to Moderate expression Developmental Stage   Expression Level embryo 00-02hr    0 embryo 02-04hr    15 embryo 04-06hr    13 embryo 06-08hr    8 embryo 08-10hr    0 embryo 10-12hr    4 embryo 12-14hr    13 embryo 14-16hr    0 embryo 16-18hr    0 embryo 18-20hr    3 embryo 20-22hr    0 embryo 22-24hr    0 larva L1    0 larva L2    0 larva L3 12hr old    23 larva L3 puffstage 1-2    0 larva L3 puffstage 3-6    23 larva L3 puffstage 7-9    20 white prepupae new    0 white prepupae 12hr    341 white prepupae 24hr    68 pupae 2d postWPP    4 pupae 3d postWPP    0 pupae 4d postWPP    0 adult male 01day    3 adult male 05day    0 adult male 30day    0 adult female 01day    0 adult female 05day    0 adult female 30day    3 Expression Level Scale  None   Extremely low   Very low   Low   Moderate   Moderately high  log, scaled to High expression Developmental Stage   Expression Level embryo 00-02hr    0 embryo 02-04hr    15 embryo 04-06hr    13 embryo 06-08hr    8 embryo 08-10hr    0 embryo 10-12hr    4 embryo 12-14hr    13 embryo 14-16hr    0 embryo 16-18hr    0 embryo 18-20hr    3 embryo 20-22hr    0 embryo 22-24hr    0 larva L1    0 larva L2    0 larva L3 12hr old    23 larva L3 puffstage 1-2    0 larva L3 puffstage 3-6    23 larva L3 puffstage 7-9    20 white prepupae new    0 white prepupae 12hr    341 white prepupae 24hr    68 pupae 2d postWPP    4 pupae 3d postWPP    0 pupae 4d postWPP    0 adult male 01day    3 adult male 05day    0 adult male 30day    0 adult female 01day    0 adult female 05day    0 adult female 30day    3 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    0 embryo 02-04hr    15 embryo 04-06hr    13 embryo 06-08hr    8 embryo 08-10hr    0 embryo 10-12hr    4 embryo 12-14hr    13 embryo 14-16hr    0 embryo 16-18hr    0 embryo 18-20hr    3 embryo 20-22hr    0 embryo 22-24hr    0 larva L1    0 larva L2    0 larva L3 12hr old    23 larva L3 puffstage 1-2    0 larva L3 puffstage 3-6    23 larva L3 puffstage 7-9    20 white prepupae new    0 white prepupae 12hr    341 white prepupae 24hr    68 pupae 2d postWPP    4 pupae 3d postWPP    0 pupae 4d postWPP    0 adult male 01day    3 adult male 05day    0 adult male 30day    0 adult female 01day    0 adult female 05day    0 adult female 30day    3 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     modENCODE Temporal Expression Data (Graveley et al., 2011) FlyAtlas Anatomical Expression Data (Chintapalli et al., 2007)
Expression Clusters
External Data & Images
Linkouts
Alleles & Phenotypes
Summary of Allele Phenotypes
Lethality Allele viable snRNA:U71 snRNA:U79 snRNA:U714 snRNA:U720 snRNA:U723 snRNA:U7EY11305 viable (with Df(3L)GN50) snRNA:U71 snRNA:U79 snRNA:U714 snRNA:U720 snRNA:U723 snRNA:U7EY11305 Sterility Allele female sterile (with Df(3L)GN50) snRNA:U71 snRNA:U79 snRNA:U714 snRNA:U720 snRNA:U723 snRNA:U7EY11305 female sterile | recessive snRNA:U71 snRNA:U79 snRNA:U714 snRNA:U720 snRNA:U723 snRNA:U7EY11305 male sterile (with Df(3L)GN50) snRNA:U71 snRNA:U79 snRNA:U714 snRNA:U720 snRNA:U723 snRNA:U7EY11305 male sterile | recessive snRNA:U71 snRNA:U79 snRNA:U714 snRNA:U720 snRNA:U723 snRNA:U7EY11305 Phenotype manifest in Allele
Classical Alleles ( 7 )
For All Classical Alleles Show
Allele of snRNA:U7 Class Mutagen Stocks Known lesion snRNA:U7DG09809 1 -- snRNA:U7EY11305 1 Yes snRNA:U714 Delta2-3 0 Yes snRNA:U71 Delta2-3 0 Yes snRNA:U720 Delta2-3 0 Yes snRNA:U723 Delta2-3 0 Yes snRNA:U79 Delta2-3 0 Yes
Alleles Carried on Transgenic Constructs ( 1 )
For All Alleles Carried on Transgenic Constructs Show
Allele of snRNA:U7 Class Mutagen Stocks Known lesion snRNA:U7+tGa in vitro construct - genomic fragment 0 Yes
Aneuploid Aberrations
Transgenic Constructs & Insertions
Transgenic Constructs
	Type of construct Name Expression data characterization construct P{snRNA:U7+tGa} NA
Insertions
	Type of insertions Name Expression data insertion of mobile activating element P{EPgy2}snRNA:U7EY11305 NA miscellaneous insertions P{3'EPgy2}snRNA:U723 NA P{?EPgy2}snRNA:U71 NA P{EPgy2-Δ9}snRNA:U79 NA P{EPgy2-Δ14}snRNA:U714 NA P{EPgy2-Δ20}snRNA:U720 NA P{wHy}Eip63EDG09809 NA
Gene Ontology: Function, Process & Cellular Component ( 9 unique terms )
Terms Based on Experimental Evidence ( 7 terms )
Molecular Function
CV term Evidence References
mRNA binding inferred from direct assay (Dominski et al., 2003)
Biological Process
CV term Evidence References
histone mRNA 3'-end processing inferred from mutant phenotype (Wagner et al., 2007, Godfrey et al., 2006) histone mRNA metabolic process inferred from direct assay (Dominski et al., 2003) oocyte development inferred from mutant phenotype (Godfrey et al., 2006)
Cellular Component
CV term Evidence References
cytoplasmic U snRNP body inferred from direct assay (Liu and Gall, 2007) histone locus body inferred from direct assay (Liu et al., 2009, Godfrey et al., 2009, Liu et al., 2006) nuclear body inferred from direct assay (Liu and Gall, 2007)
Terms Based on Predictions or Assertions ( 3 terms )
Molecular Function
CV term Evidence References
mRNA 3'-UTR binding non-traceable author statement (Dominski, 2003.5.30)
Biological Process
CV term Evidence References
histone mRNA 3'-end processing non-traceable author statement (Dominski, 2003.5.30)
Cellular Component
CV term Evidence References
U7 snRNP non-traceable author statement (Dominski, 2003.5.30)
Sequence Ontology: Class of Gene
	nuclear_gene (Dominski et al., 2003) snRNA_gene (Dominski et al., 2003)
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 snRNA:U7 allele Gene References
External Data
Linkouts
Orthologs
Genome-wide drosophilid orthologs
Curated drosophilid orthologs
Linkouts
Stocks & Reagents
Stocks Listed in FlyBase ( 2 )
Bloomington	20288 y1 w67c23; P{EPgy2}snRNA:U7EY11305 21478 y1 w67c23; P{wHy}Eip63EDG09809 snRNA:U7DG09809
Genomic Clones ( 1 )
	BACR09B04 Please Note FlyBase no longer curates genomic clone accessions so this list may not be complete
cDNA Clones ( 0 )
	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
cDNA Clones, End Sequenced (ESTs)
BDGP DGC clones
Other clones
RNAi & Array Information
Linkouts	GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 3346241
Other Information
Discoverer
Etymology
Identification
Relationship to Other Genes
Source for database identity of
Source for database merge of
Additional comments
Other Comments
	New annotation (CR33504) in release 4.1 of the genome annotation. (FlyBase Genome Annotators, 2005)
External Crossreferences & Linkouts
Sequence Crossreferences
	RefSeq (Transcripts) • NR_002270 DDBJ / EMBL / GenBank • AY310908 Entrez Gene - A searchable database of RefSeq genes. • 3772175
Other Crossreferences
Linkouts
	FlyMine - Integrated genomics database for Drosophila, Anopheles, and C.elegans • FBgn0053504 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 3346241 modMine - Data generated by the modENCODE project. • FBgn0053504
Synonyms & Secondary IDs ( 7 )
Reported As
Symbol Synonym	CR33504   snRNA:U7   U7 (Wagner et al., 2007, Matera, 2006, Wagner et al., 2007, White et al., 2007, Dominski et al., 2005, Godfrey et al., 2006, Liu et al., 2006, Tatomer et al., 2008, Bulchand et al., 2010) U7 snRNA (Godfrey et al., 2005, Dominski et al., 2003, Yang et al., 2009, Ezzeddine et al., 2011, Liu et al., 2009) U7snRNA (Wagner et al., 2008)
Name Synonym	* (Ezzeddine et al., 2011) small nuclear RNA U7 (Dominski et al., 2003) U7 snRNA (Azzouz and Schumperli, 2003, Liu and Gall, 2007)
Secondary FlyBase IDs
	FBgn0067333
References ( 23 )
Generate a list of	All references relating to this gene ( 23 )
List References by type	Research paper  ( 13 ) Supplementary material  ( 1 ) Review  ( 1 ) Personal communication to FlyBase  ( 1 ) Abstract  ( 4 ) FlyBase analysis  ( 2 ) DNA/RNA sequence record  ( 1 )
Recent research papers ( 2 )
	Ezzeddine et al., 2011, Mol. Cell. Biol. 31(2): 328--341 A Subset of Drosophila Integrator Proteins Is Essential for Efficient U7 snRNA and Spliceosomal snRNA 3'-End Formation. [FBrf0212592] Bulchand et al., 2010, J. Cell Sci. 123(16): 2697--2707 Muscle wasted: a novel component of the Drosophila histone locus body required for muscle integrity. [FBrf0211459] Show all research papers ...
Recent reviews (0)
	All reviews listed in FlyBase were published before 2010 Show reviews ...