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Gene Dmel\snRNA:U1:82Eb

General Information
Symbol	Dmel\snRNA:U1:82Eb	Species	D. melanogaster
Name	small nuclear RNA U1 at 82Eb	Annotation symbol	CR32862
Feature type	snRNA_gene	FlyBase ID	FBgn0004183
Gene Model Status	Current	Stock availability	4 publicly available
Also Known As	U1, U1 snRNA, U1-82.3, U1snRNA, U1:82Eb
Genomic Location
Chromosome (arm)	3R	Recombination map
Cytogenetic map	82E3-82E3	Sequence location	3R:773,655..773,818 [-]
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 U1 at 82Eb is referred to in FlyBase by the symbol Dmel\snRNA:U1:82Eb (CR32862, FBgn0004183). It is a snRNA_gene from Drosophila melanogaster. Its molecular function is unknown. Based on sequence similarity, it is predicted to be involved in the biological process: nuclear mRNA splicing, via spliceosome. 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 within 00-06 hour embryonic stages, in adult female 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:U1:82Eb. Comments on Affy2 ProbeSet: No relevant information because no Affy2 ProbeSet aligns to an exon of snRNA:U1:82Eb. Gene sequence location is 3R:773655..773818.
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	References Kim et al., 2010, Mol. Cell. Biol. 30(10): 2411--2423 Sequence features BKN41844
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 82E3-82E3   Limits computationally determined from genome sequence between P{PZ}l(3)0273302733 and P{EP}EP974
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:U1:82Eb 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)   snRNA:U1:82Eb-RA FBtr0078851  NR_001982   255
Additional Transcript Data & Comments
Reported size (kB)
Comments
External Data
Crossreferences
Sequences Consistent with the Gene Model
DDBJ / EMBL / GenBank	DNA sequence   Name CZ474485   CZ475941   CZ476772   CZ477021   M17639   X01725   X53542
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 FBgn0004183    Styles Linear Logarithmic Heatmap    Scales max expr for FBgn0004183 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 within 00-06 hour embryonic stages, in adult female 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 FBgn0004183 expression level Developmental Stage   Expression Level embryo 00-02hr    144 embryo 02-04hr    56 embryo 04-06hr    20 embryo 06-08hr    15 embryo 08-10hr    19 embryo 10-12hr    11 embryo 12-14hr    7 embryo 14-16hr    5 embryo 16-18hr    5 embryo 18-20hr    2 embryo 20-22hr    0 embryo 22-24hr    20 larva L1    0 larva L2    4 larva L3 12hr old    0 larva L3 puffstage 1-2    0 larva L3 puffstage 3-6    14 larva L3 puffstage 7-9    4 white prepupae new    3 white prepupae 12hr    14 white prepupae 24hr    20 pupae 2d postWPP    14 pupae 3d postWPP    2 pupae 4d postWPP    0 adult male 01day    4 adult male 05day    6 adult male 30day    0 adult female 01day    13 adult female 05day    120 adult female 30day    80 Expression Level Scale  None   Extremely low   Very low   Low  Linear, scaled to Very low expression Developmental Stage   Expression Level embryo 00-02hr  (144) embryo 02-04hr    56 embryo 04-06hr    20 embryo 06-08hr    15 embryo 08-10hr    19 embryo 10-12hr    11 embryo 12-14hr    7 embryo 14-16hr    5 embryo 16-18hr    5 embryo 18-20hr    2 embryo 20-22hr    0 embryo 22-24hr    20 larva L1    0 larva L2    4 larva L3 12hr old    0 larva L3 puffstage 1-2    0 larva L3 puffstage 3-6    14 larva L3 puffstage 7-9    4 white prepupae new    3 white prepupae 12hr    14 white prepupae 24hr    20 pupae 2d postWPP    14 pupae 3d postWPP    2 pupae 4d postWPP    0 adult male 01day    4 adult male 05day    6 adult male 30day    0 adult female 01day    13 adult female 05day  (120) adult female 30day    80 Expression Level Scale  None   Extremely low   Very low   Low  Linear, scaled to Moderate expression Developmental Stage   Expression Level embryo 00-02hr    144 embryo 02-04hr    56 embryo 04-06hr    20 embryo 06-08hr    15 embryo 08-10hr    19 embryo 10-12hr    11 embryo 12-14hr    7 embryo 14-16hr    5 embryo 16-18hr    5 embryo 18-20hr    2 embryo 20-22hr    0 embryo 22-24hr    20 larva L1    0 larva L2    4 larva L3 12hr old    0 larva L3 puffstage 1-2    0 larva L3 puffstage 3-6    14 larva L3 puffstage 7-9    4 white prepupae new    3 white prepupae 12hr    14 white prepupae 24hr    20 pupae 2d postWPP    14 pupae 3d postWPP    2 pupae 4d postWPP    0 adult male 01day    4 adult male 05day    6 adult male 30day    0 adult female 01day    13 adult female 05day    120 adult female 30day    80 Expression Level Scale  None   Extremely low   Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Developmental Stage   Expression Level embryo 00-02hr    144 embryo 02-04hr    56 embryo 04-06hr    20 embryo 06-08hr    15 embryo 08-10hr    19 embryo 10-12hr    11 embryo 12-14hr    7 embryo 14-16hr    5 embryo 16-18hr    5 embryo 18-20hr    2 embryo 20-22hr    0 embryo 22-24hr    20 larva L1    0 larva L2    4 larva L3 12hr old    0 larva L3 puffstage 1-2    0 larva L3 puffstage 3-6    14 larva L3 puffstage 7-9    4 white prepupae new    3 white prepupae 12hr    14 white prepupae 24hr    20 pupae 2d postWPP    14 pupae 3d postWPP    2 pupae 4d postWPP    0 adult male 01day    4 adult male 05day    6 adult male 30day    0 adult female 01day    13 adult female 05day    120 adult female 30day    80 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    144 embryo 02-04hr    56 embryo 04-06hr    20 embryo 06-08hr    15 embryo 08-10hr    19 embryo 10-12hr    11 embryo 12-14hr    7 embryo 14-16hr    5 embryo 16-18hr    5 embryo 18-20hr    2 embryo 20-22hr    0 embryo 22-24hr    20 larva L1    0 larva L2    4 larva L3 12hr old    0 larva L3 puffstage 1-2    0 larva L3 puffstage 3-6    14 larva L3 puffstage 7-9    4 white prepupae new    3 white prepupae 12hr    14 white prepupae 24hr    20 pupae 2d postWPP    14 pupae 3d postWPP    2 pupae 4d postWPP    0 adult male 01day    4 adult male 05day    6 adult male 30day    0 adult female 01day    13 adult female 05day    120 adult female 30day    80 Expression Level Scale  None   Extremely low   Very low   Low   Moderate   Moderately high   High   Very high   Extremely high  log, scaled to maximum FBgn0004183 expression level Developmental Stage   Expression Level embryo 00-02hr    144 embryo 02-04hr    56 embryo 04-06hr    20 embryo 06-08hr    15 embryo 08-10hr    19 embryo 10-12hr    11 embryo 12-14hr    7 embryo 14-16hr    5 embryo 16-18hr    5 embryo 18-20hr    2 embryo 20-22hr    0 embryo 22-24hr    20 larva L1    0 larva L2    4 larva L3 12hr old    0 larva L3 puffstage 1-2    0 larva L3 puffstage 3-6    14 larva L3 puffstage 7-9    4 white prepupae new    3 white prepupae 12hr    14 white prepupae 24hr    20 pupae 2d postWPP    14 pupae 3d postWPP    2 pupae 4d postWPP    0 adult male 01day    4 adult male 05day    6 adult male 30day    0 adult female 01day    13 adult female 05day    120 adult female 30day    80 Expression Level Scale  None   Extremely low   Very low   Low  log, scaled to Very low expression Developmental Stage   Expression Level embryo 00-02hr  (144) embryo 02-04hr    56 embryo 04-06hr    20 embryo 06-08hr    15 embryo 08-10hr    19 embryo 10-12hr    11 embryo 12-14hr    7 embryo 14-16hr    5 embryo 16-18hr    5 embryo 18-20hr    2 embryo 20-22hr    0 embryo 22-24hr    20 larva L1    0 larva L2    4 larva L3 12hr old    0 larva L3 puffstage 1-2    0 larva L3 puffstage 3-6    14 larva L3 puffstage 7-9    4 white prepupae new    3 white prepupae 12hr    14 white prepupae 24hr    20 pupae 2d postWPP    14 pupae 3d postWPP    2 pupae 4d postWPP    0 adult male 01day    4 adult male 05day    6 adult male 30day    0 adult female 01day    13 adult female 05day  120 adult female 30day    80 Expression Level Scale  None   Extremely low   Very low   Low  log, scaled to Moderate expression Developmental Stage   Expression Level embryo 00-02hr    144 embryo 02-04hr    56 embryo 04-06hr    20 embryo 06-08hr    15 embryo 08-10hr    19 embryo 10-12hr    11 embryo 12-14hr    7 embryo 14-16hr    5 embryo 16-18hr    5 embryo 18-20hr    2 embryo 20-22hr    0 embryo 22-24hr    20 larva L1    0 larva L2    4 larva L3 12hr old    0 larva L3 puffstage 1-2    0 larva L3 puffstage 3-6    14 larva L3 puffstage 7-9    4 white prepupae new    3 white prepupae 12hr    14 white prepupae 24hr    20 pupae 2d postWPP    14 pupae 3d postWPP    2 pupae 4d postWPP    0 adult male 01day    4 adult male 05day    6 adult male 30day    0 adult female 01day    13 adult female 05day    120 adult female 30day    80 Expression Level Scale  None   Extremely low   Very low   Low   Moderate   Moderately high  log, scaled to High expression Developmental Stage   Expression Level embryo 00-02hr    144 embryo 02-04hr    56 embryo 04-06hr    20 embryo 06-08hr    15 embryo 08-10hr    19 embryo 10-12hr    11 embryo 12-14hr    7 embryo 14-16hr    5 embryo 16-18hr    5 embryo 18-20hr    2 embryo 20-22hr    0 embryo 22-24hr    20 larva L1    0 larva L2    4 larva L3 12hr old    0 larva L3 puffstage 1-2    0 larva L3 puffstage 3-6    14 larva L3 puffstage 7-9    4 white prepupae new    3 white prepupae 12hr    14 white prepupae 24hr    20 pupae 2d postWPP    14 pupae 3d postWPP    2 pupae 4d postWPP    0 adult male 01day    4 adult male 05day    6 adult male 30day    0 adult female 01day    13 adult female 05day    120 adult female 30day    80 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    144 embryo 02-04hr    56 embryo 04-06hr    20 embryo 06-08hr    15 embryo 08-10hr    19 embryo 10-12hr    11 embryo 12-14hr    7 embryo 14-16hr    5 embryo 16-18hr    5 embryo 18-20hr    2 embryo 20-22hr    0 embryo 22-24hr    20 larva L1    0 larva L2    4 larva L3 12hr old    0 larva L3 puffstage 1-2    0 larva L3 puffstage 3-6    14 larva L3 puffstage 7-9    4 white prepupae new    3 white prepupae 12hr    14 white prepupae 24hr    20 pupae 2d postWPP    14 pupae 3d postWPP    2 pupae 4d postWPP    0 adult male 01day    4 adult male 05day    6 adult male 30day    0 adult female 01day    13 adult female 05day    120 adult female 30day    80 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
Phenotype manifest in Allele
Classical Alleles ( 8 )
For All Classical Alleles Show
Allele of snRNA:U1:82Eb Class Mutagen Stocks Known lesion snRNA:U1:82Ebd09954 P-element activity 1 -- snRNA:U1:82EbEY04087 P-element activity 1 -- snRNA:U1:82EbKG00155 1 -- snRNA:U1:82EbNP1591 1 -- snRNA:U1:82Ebd03575 0 -- snRNA:U1:82Ebd05357 P-element activity 0 -- snRNA:U1:82Ebd07826 P-element activity 0 -- snRNA:U1:82Ebd09499 P-element activity 0 --
Alleles Carried on Transgenic Constructs ( 0 )
For All Alleles Carried on Transgenic Constructs Show
Allele of snRNA:U1:82Eb Class Mutagen Stocks Known lesion
Aneuploid Aberrations
Transgenic Constructs & Insertions
Transgenic Constructs
	Type of construct Name Expression data
Insertions
	Type of insertions Name Expression data insertion of enhancer trap binary system P{GawB}snRNA:U1:82EbNP1591 No miscellaneous insertions P{SUPor-P}snRNA:U1:82EbKG00155 NA insertion of mobile activating element P{EPgy2}snRNA:U1:82EbEY04087 NA P{XP}snRNA:U1:82Ebd03575 NA P{XP}snRNA:U1:82Ebd05357 NA P{XP}snRNA:U1:82Ebd07826 NA P{XP}snRNA:U1:82Ebd09499 NA P{XP}snRNA:U1:82Ebd09954 NA
Gene Ontology: Function, Process & Cellular Component ( 2 unique terms )
Terms Based on Experimental Evidence ( 0 terms )
Terms Based on Predictions or Assertions ( 2 terms )
Molecular Function ( 0 terms)
Biological Process
CV term Evidence References
nuclear mRNA splicing, via spliceosome inferred from sequence or structural similarity (Mount and Salz, 2000)
Cellular Component
CV term Evidence References
U1 snRNP inferred from sequence or structural similarity (Mount and Salz, 2000)
Sequence Ontology: Class of Gene
	nuclear_gene (FlyBase Genome Annotators, 2002-2003) snRNA_gene (FlyBase Genome Annotators, 2002-2003)
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:U1:82Eb allele Gene References
External Data
Linkouts
Orthologs
Genome-wide drosophilid orthologs
Curated drosophilid orthologs
Linkouts
Stocks & Reagents
Stocks Listed in FlyBase ( 4 )
Bloomington	15716 y1 w67c23; P{EPgy2}snRNA:U1:82EbEY04087 13644 w1118; P{SUPor-P}snRNA:U1:82EbKG00155 ry506/TM3, Sb1 Ser1
Harvard	- P{XP}snRNA:U1:82Ebd09954
Kyoto	112719 y* w*; P{GawB}snRNA:U1:82EbNP1591 / TM6, P{UAS-lacZ.UW23-1}UW23-1
Genomic Clones ( 2 )
	BACR11M01 BACR20D10 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	DRSC - Results from RNAi screens. • FBgn0004183 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 49697
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 (CR32862) in release 3 of the genome annotation. Only one copy of a U1 snRNA gene (CR32862) has been detected at 82E in the D.melanogaster strain used for sequencing the genome, although 3 copies have previously been reported in clones derived from Oregon R flies - snRNA:U1:82Eb, snRNA:U1:82Ec and snRNA:U1:82Ea (FBrf0052749). The copy present in the sequenced strain appears to correspond to snRNA:U1:82Eb, while snRNA:U1:82Ec and snRNA:U1:82Ea appear to be missing from the sequenced strain (see FBrf0128209). (FlyBase Genome Annotators, 2002-2003) snRNA:U1:82Eb has been cloned and sequenced. (Lo and Mount, 1990)
External Crossreferences & Linkouts
Sequence Crossreferences
	RefSeq (Transcripts) • NR_001982 DDBJ / EMBL / GenBank • CZ474485 CZ475941 CZ476772 CZ477021 M17639 X01725 X53542 Entrez Gene - A searchable database of RefSeq genes. • 3771770
Other Crossreferences
Linkouts
	DRSC - Results from RNAi screens. • FBgn0004183 FlyMine - Integrated genomics database for Drosophila, Anopheles, and C.elegans • FBgn0004183 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 49697 modMine - Data generated by the modENCODE project. • FBgn0004183
Synonyms & Secondary IDs ( 15 )
Reported As
Symbol Synonym	CR32862   K5 (Wooley et al., 1982) snRNA:U1   snRNA:U1:82Eb   snRNA-U1-82.3   U1 (Dominski et al., 2003, Yuan et al., 2003, Harding et al., 2002, Price et al., 1998, Wang and Stumph, 1998, Wang et al., 1996, Deshpande et al., 1996, Matunis et al., 1993, Saluz et al., 1988, Myslinski et al., 1984, Li et al., 2004, Kroiss et al., 2008, Mount et al., 2007, Gonsalvez et al., 2008, Gonsalvez et al., 2010, Kim et al., 2010) U1-82.3 (Mount, 2000.5, Jensen et al., 1998, Waters et al., 1992, Lo and Mount, 1990) U1-82Eb (Ezzeddine et al., 2011) U1:82Eb (Lai et al., 2005, Hernandez et al., 2007, Tortoriello et al., 2009) U1a-82Eb (Mount and Salz, 2000) U1 snRNA (Labourier et al., 2001, Nagengast et al., 2001, Reim et al., 1999, Gonsalvez et al., 2006, Nakamura et al., 2008, Deryusheva and Gall, 2009, Labourier and Rio, 2001, Rajendra et al., 2007) U1snRNA (Horowitz and Krainer, 1994, Wang and Stumph, 1995, Duckett et al., 1995, ) U1snRNA82Eb
Name Synonym	small nuclear RNA U1   small nuclear RNA U1 at 82Eb
Secondary FlyBase IDs
	FBgn0003915 FBgn0003917
References ( 43 )
Generate a list of	All references relating to this gene ( 43 )
List References by type	Research paper  ( 35 ) Review  ( 1 ) Personal communication to FlyBase  ( 1 ) Abstract  ( 2 ) FlyBase analysis  ( 2 ) Computer file  ( 2 )
Recent research papers ( 3 )
	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] Gonsalvez et al., 2010, Development 137(14): 2341--2351 Sm proteins specify germ cell fate by facilitating oskar mRNA localization. [FBrf0211144] Kim et al., 2010, Mol. Cell. Biol. 30(10): 2411--2423 Identification of SNAPc subunit domains that interact with specific nucleotide positions in the U1 and U6 gene promoters. [FBrf0214992] Show all research papers ...
Recent reviews (0)
	All reviews listed in FlyBase were published before 2010 Show reviews ...