Gene Dmel\snRNA:U5:35D

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General Information

Symbol

Dmel\snRNA:U5:35D

Species

D. melanogaster

Name

small nuclear RNA U5 at 35EF

Annotation symbol

CR32877

Feature type

snRNA_gene

FlyBase ID

FBgn0003936

Gene Model Status

Current

Stock availability

1 publicly available

Also Known As

U5, U5 snRNA, U5:35D

Genomic Location

Chromosome (arm)

Recombination map

Cytogenetic map

35D4-35D4

Sequence location

2L:15,751,557..15,751,682 [-]

Genomic Maps

Select View:

Summary Information

Automatically generated summary

See sections below for more information

The gene small nuclear RNA U5 at 35EF is referred to in FlyBase by the symbol Dmel\snRNA:U5:35D (CR32877, FBgn0003936). 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: mRNA splicing, via spliceosome. One allele is reported. No phenotypic data is available. It has one annotated transcript. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of extremely low expression to a trough of no expression detected. Peak expression observed within 00-06 hour embryonic stages, during early pupal stages, in adult male 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:U5:35D. Comments on Affy2 ProbeSet: No relevant information because no Affy2 ProbeSet aligns to an exon of snRNA:U5:35D. Gene sequence location is 2L:15751557..15751682.

User Contributed Data

Beta version, feedback welcome

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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FB2013_03

FB2013_02

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

35D4-35D4

Limits computationally determined from genome sequence between P{lacW}CycE^k05007&P{lacW}CycE^k02602 and P{EP}crp^EP721&P{lacW}crp^k07829

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

35E-35F

(determined by in situ hybridisation)

(Saluz et al., 1983)

Experimentally Determined Recombination Data

Location

Left of (cM)

Right of (cM)

Notes

Gene Model & Products

Please see the GBrowse view of Dmel\snRNA:U5:35D 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:U5:35D-RA

FBtr0080770

NR_001659

126

Additional Transcript Data & Comments

Reported size (kB)

Comments

External Data

Crossreferences

Sequences Consistent with the Gene Model

DDBJ /
EMBL /
GenBank

DNA sequence

Name

K03096

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

Expression Deduced from Reporters

High-Throughput Expression Data

Associated Tools

Reference

See Gelbart and Emmert, 2010.10.13 for analysis details and data files for all genes.

FlyAtlas Anatomy Microarray

FlyAtlas Anatomical Expression Data (Chintapalli et al., 2007)

modENCODE Anatomy RNA-Seq

modENCODE Development RNA-Seq

modENCODE Temporal Expression Data (Graveley et al., 2011)

modENCODE Cell Lines RNA-Seq

modENCODE Treatments RNA-Seq

Expression Clusters

External Data & Images

Linkouts

Alleles & Phenotypes

Summary of Allele Phenotypes

Phenotype manifest in

Allele

Classical Alleles ( 1 )

For All Classical Alleles Show

Allele of snRNA:U5:35D	Class	Mutagen	Stocks	Known lesion
snRNA:U5:35D^G3078		P-element activity	1	--

Alleles Carried on Transgenic Constructs ( 0 )

For All Alleles Carried on Transgenic Constructs Show

Allele of snRNA:U5:35D	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 mobile activating element

P{EP}snRNA:U5:35D^G3078

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

mRNA splicing, via spliceosome

inferred from sequence or structural similarity

(Mount and Salz, 2000)

Cellular Component

CV term

Evidence

References

U5 snRNP

inferred from sequence or structural similarity

(Mount and Salz, 2000)

Sequence Ontology: Class of Gene

nuclear_gene

snRNA_gene

Interactions & Pathways

Summary of Physical Interactions

Summary of Genetic Interactions

Interacts with

Please look at the allele data for full details of the genetic interactions

snRNA:U5:35D allele

Gene

References

External Data

Linkouts

Orthologs

OrthoDB Orthologs (0) - based on analysis using Dmel annotation version 5.41

OrthoDB Ortholog Groups

OrthoDB orthology group searches

(Waterhouse et al., 2011, Nucleic Acids Res. 39(Database issue): D283--D288)

Drosophila inclusive ortholog search

No orthologs identified

Dipteran inclusive ortholog search

No orthologs identified

Insect inclusive ortholog search

No orthologs identified

Arthropod inclusive ortholog search

No orthologs identified

Metazoa inclusive ortholog search

No orthologs identified

Orthologs in Drosophila Species (None identified)

No orthologies identified

Orthologs in non-Drosophila Dipterans (None identified)

No non-Drosophilid orthologies identified

Orthologs in non-Dipteran Insects (None identified)

No non-Dipteran orthologies identified

Orthologs in non-Insect Arthropods (None identified)

No non-Insect Arthropod orthologies identified

Orthologs in non-Arthropod Metazoa (None identified)

No non-Arthropod Metazoa orthologies identified

Human Orthologs (0)

Gene

OMIM

HGNC

AAA Orthologs (0) based on analysis using Dmel annotation version 4.3

No orthologs identified

Stocks & Reagents

Stocks Listed in FlyBase ( 1 )

Bloomington

27468

y¹ w^*; P{EP}snRNA:U5:35D^G3078

Genomic Clones ( 1 )

BACR44L22

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

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