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Gene Dmel\U2af50

General Information
Symbol	Dmel\U2af50	Species	D. melanogaster
Name	U2 small nuclear riboprotein auxiliary factor 50	Annotation symbol	CG9998
Feature type	protein_coding_gene	FlyBase ID	FBgn0005411
Created / Updated	2003-12-01/2003-12-01
Genomic Location
Chromosome (arm)	X	Recombination map
Cytogenetic map	14B17-14B18	Sequence location	X:16,250,713..16,253,072 [-]
Map ( 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 U2 small nuclear riboprotein auxiliary factor 50 is referred to in FlyBase by the symbol U2af50 (CG9998, FBgn0005411). It has the cytological map location 14B17-14B18. Its sequence location is X:16250713..16253072. Its molecular function is described as: poly-pyrimidine tract binding; RNA splicing factor activity, transesterification mechanism; protein heterodimerization activity; mRNA binding; nucleotide binding. It is involved in the biological processes: nuclear mRNA splicing, via spliceosome; spliceosome assembly; nuclear export; regulation of alternative nuclear mRNA splicing, via spliceosome; mitotic spindle organization and biogenesis. 29 alleles are reported. No phenotypic data is available. It has one annotated transcript and one annotated polypeptide.
External Summaries
Detailed Mapping Data
FlyBase Computed Cytological Location
Cytogenetic map Evidence for location 14B17-14B18   Limits computationally determined from genome sequence between P{EP}Cyp1EP1073&P{EP}Dsp1EP355 and P{EP}EP1493EP1493
Experimentally Determined Cytological Location
Cytogenetic map Notes References 14C1-14C2   (Kanaar, 1993.12.6)
Experimentally Determined Recombination Data
Location
Left of (cM)
Right of (cM)
Notes
Molecular Map Data
Gene Order (in direction of increasing cytology) References Gene Order (overall orientation not stated) References
Gene Model & Products
Please see the GBrowse view of Dmel\U2af50 for information on other features
Comments on Gene Model
Transcript Data
Annotated Transcripts
Name FlyBase ID RefSeq ID Length (nt) Associated CDS (aa) U2af50-RA FBtr0074234  NM_057543   1543   416
Additional Transcript Data & Comments
Reported size (kB)	1.6 (northern blot) (Kanaar et al., 1993)
Comments
External Data
Crossreferences
Polypeptide Data
Annotated Polypeptides
Name FlyBase ID Predicted MW (kD) Length (aa) Theoretical pI RefSeq ID GenBank protein U2af50-PA   FBpp0074013   46.7   416   7.56     NP_476891   AAF48596
Additional Polypeptide Data & Comments
Reported size (kD)	416 (aa); 47 (kD predicted) (Kanaar et al., 1993)
Comments
External Data
Linkouts	PANTHER - Protein classification by function, families, and pathways • FBgn0005411
Crossreferences	InterPro domains - A database of protein families, domains, and functional sites • RNA recognition motif, RNP-1 (IPR000504) U2 snRNP auxilliary factor, large subunit, splicing factor (IPR006529) Nucleotide-binding, alpha-beta plait (IPR012677)
Sequences Consistent with the Gene Model
DDBJ / EMBL / GenBank	DNA sequence Protein sequence Name AA142048   AA142049   AA201787   AA202269   AA246335   AA247007   AA264361   AA538909   AA539311   AA694970   AA696265   AA735570   AA735637   AA802460   AA803533   AA942449   AA949918   AC010039   AC010846   AE003502 AAF48596   AI063129   AI108636   AI257675   AI405043   AI455206   AI456595   AI456709   AI456777   AI512032   AI516128   AI520091   AI533649   AW941532   AY069320 AAL39465   BF491268   BF492448   BF494884   BF494893   BF496059   BF496075   BF496827   BF503033   BF506073   BG634780   BI163905   BI164563   BI170015   BI170200   BI172909   BI212143   BI212167   BI213920   BI214960   BI215183   BI216493   BI229635   BI229874   BI230601   BI230912   BI232413   BI236424   BI237092   BI237098   BI238456   BI239676   BI240510   BI362179   BI362188   BI362722   BI362765   BI362866   BI362977   BI366097   BI366956   BI368758   BI368998   BI370707   BI372823   BI372857   BI374008   BI375703   BI375778   BI375860   BI482202   BI482559   BI482676   BI483332   BI483707   BI485077   BI485079   BI485419   BI486329   BI486907   BI571980   BI572000   BI577645   BI577798   BI579181   BI579963   BI580352   BI580568   BI589106   BI611040   BI612690   BI615774   BI618229   BI619251   BI623354   BI633267   BI640388   BP546187   CA803556   CK00184   CK605144   CK605145   CK605257   CK605258   CO302469   CO303190   CO311629   CO323798   CO327472   EC074265   EC089542   EC195570   EC202305   EC209043   EC223292   EC223716   EC235088   EC248925   L23404   UT01712   UT01792
UniProtKB/Swiss-Prot	Q24562
UniProtKB/TrEMBL
Maps to	FBcl0297380 (FlyBase, 1992-)
Does NOT map to
Identified with	LD03714 (BDGP Project Members, 2000-)
Mapped Features & Mutations
Please see GBrowse or insertion reports for information on insertions of transgenic constructs and features not listed here Type Symbol & Location Additional Notes References aberration junction Tp(1;2)r[+]75c X:16,246,536..16,248,273 comment=position of restriction fragment on reference sequence inferred by FlyBase curator evidence=experimental linked_to=BamHI-BamHI_rfrag (Jones and Rubin, 1990) rescue fragment U2af50[+tB12] X:16,248,268..16,261,178 comment=position of restriction fragment on reference sequence inferred by FlyBase curator evidence=experimental linked_to=BamHI-BamHI_rfrag (Jones and Rubin, 1990) rescue fragment U2af50[+tS12] X:16,245,528..16,258,068 comment=position of restriction fragment on reference sequence inferred by FlyBase curator evidence=experimental linked_to=SalI-SalI_rfrag (Jones and Rubin, 1990) rescue fragment U2af50[+t10] X:16,248,268..16,258,068 comment=position of restriction fragment on reference sequence inferred by FlyBase curator evidence=experimental linked_to=SalI-BamHI_rfrag (Kanaar et al., 1993)
External Data
Linkouts	DEDB - Drosophila exon database: splicing graphs • 3058
Crossreferences
Expression Data
FlyBase-Curated Data
Transcript and Protein data	Please see the FlyBase Gene Expression Report for details of gene expression from the literature.
Summary of Transcript Expression
Stage Tissue/Position Reference  embryonic stage-adult stage   (Kanaar et al., 1993)
Marker for
Subcellular Localization
CV Term
Summary of Polypeptide Expression
Stage Tissue/Position Reference
Marker for
Subcellular Localization
CV Term
External Data & Images
Linkouts	FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0005411 FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array • FBgn0005411 GEO (NCBI) - Gene expression data: microarray and other high-throughput technologies • FBgn0005411
Alleles & Phenotypes
Summary of Allele Phenotypes
Lethality Allele lethal | recessive U2af509-21 U2af50XR15 U2af50XR26 lethal | conditional - heat sensitive U2af50XR15 lethal | larval stage | recessive U2af504a3-1 U2af509-21 U2af50XR15 U2af50XR18 Other Phenotypes Allele wild-type U2af50+t10 U2af50+tB12 U2af50+tRa.T:Ivir\HA1 U2af50+tS12 U2af50RS.7.final U2af50RS.7 U2af50ΔRS.final U2af50ΔRS.true U2af50ΔRS Phenotype manifest in Allele
Classical Alleles ( 6 )
For All Classical Alleles Show
Allele of U2af50 Class Mutagen Stocks Known lesion U2af504a3-1 X ray 0 -- U2af506b4 X ray 0 -- U2af509-21 spontaneous 0 -- U2af50XR15 X ray 0 -- U2af50XR18 X ray 0 -- U2af50XR26 X ray 0 --
Alleles Carried on Transgenic Constructs ( 23 )
For All Alleles Carried on Transgenic Constructs Show
Allele of U2af50 Class Mutagen Stocks Known lesion U2af50+mBa in vitro construct | minigene 0 Yes U2af50+t10 in vitro construct | genomic fragment 0 Yes U2af50+tB12 in vitro construct | genomic fragment 0 Yes U2af50+tRa.T:Ivir\HA1 in vitro construct | coding region fusion in vitro construct | genomic fragment 0 Yes U2af50+tS12 in vitro construct | genomic fragment 0 Yes U2af50D150A.E151A in vitro construct | regulatory fusion in vitro construct | site directed mutagenesis 0 Yes U2af50D204N.ts in vitro construct | regulatory fusion in vitro construct | site directed mutagenesis 0 Yes U2af50GD13809 in vitro construct | RNAi in vitro construct | regulatory fusion 2 Yes U2af50RS.7.extreme in vitro construct | other 0 Yes U2af50RS.7.final in vitro construct | other 0 Yes U2af50RS.7 in vitro construct | other 0 Yes U2af50S284Y.ts in vitro construct | site directed mutagenesis 0 Yes U2af50T160I in vitro construct | regulatory fusion in vitro construct | site directed mutagenesis 0 Yes U2af50hs.P in vitro construct | regulatory fusion 0 Yes U2af50mut.1.T:Ivir\HA1 in vitro construct | amino acid replacement in vitro construct | site directed mutagenesis 0 Yes U2af50mut.2.T:Ivir\HA1 in vitro construct | amino acid replacement in vitro construct | site directed mutagenesis 0 Yes U2af50mut.3.T:Ivir\HA1 in vitro construct | amino acid replacement in vitro construct | site directed mutagenesis 0 Yes U2af50mut.4.T:Ivir\HA1 in vitro construct | amino acid replacement in vitro construct | site directed mutagenesis 0 Yes U2af50ΔBst in vitro construct | other 0 Yes U2af50ΔRS.extreme in vitro construct | deletion 0 Yes U2af50ΔRS.final in vitro construct | deletion 0 Yes U2af50ΔRS.true in vitro construct | deletion 0 Yes U2af50ΔRS in vitro construct | deletion 0 Yes
Aneuploid Aberrations
Useful deficiency	Df(1)4b18
Disrupted in	Df(1)4b18 (Stanewsky et al., 1993) Df(1)6b4 (Stanewsky et al., 1993) Df(1)XR26 (Rudner et al., 1998, Stanewsky et al., 1993) Df(1)l32 (Lindsley, 1993, Banga et al., 1995) Df(1)r75c (Jones and Rubin, 1990)
Duplicated in	Dp(1;2)r+75c (Schalet, 1986, Banga et al., 1995) Dp(1;4)80f18c (Banga et al., 1995) Dp(1;4)81l12h (Banga et al., 1995) Dp(1;4)81l8g (Banga et al., 1995)
Not disrupted in	Df(1)r-D1 (Schalet, 1986, Lindsley, 1993, Banga et al., 1995) T(1;4)9e2-10 (Stanewsky et al., 1993)
Transgenic Constructs & Insertions
Transgenic Constructs
	Type of construct Name Expression data UAS construct P{GD13809} NA characterization construct P{211S12} NA P{235B12} NA P{9-21/dU2AF50genomic} NA P{HA-U2af50.mut1} NA P{HA-U2af50.mut2} NA P{HA-U2af50.mut3} NA P{HA-U2af50.mut4} NA P{HA-U2af50} NA P{U2af50(RS)7.extreme} NA P{U2af50(RS)7.final} NA P{U2af50(RS)7} NA P{U2af50.+mBa} NA P{U2af50.D150A.E151A} NA P{U2af50.D204N.ts} NA P{U2af50.S284Y.ts} NA P{U2af50.T160I} NA P{U2af50.ΔRS.extreme} NA P{U2af50.ΔRS.final} NA P{U2af50.ΔRS.true} NA P{U2af50.ΔRS} NA P{U2af50ΔBst} NA P{tra2::U2af50C.T:FLAG} NA P{tra2::U2af50C.T:lacZ} NA P{tra2::U2af50N.T:FLAG} NA heat-shock construct P{U2af50hs.P} NA
Insertions
	Type of insertions Name Expression data
Related Comments
	Please look at the allele reports for the complete phenotype data Germline transformation of a wild type copy of U2af50 is capable of rescuing a lethal mutation, establishing that U2af50 is essential for viability. (Kanaar et al., 1993) RNAi screen using dsRNA made from templates generated with primers directed against this gene results in a long metaphase spindle with misaligned chromosomes when assayed in S2 cells. This phenotype can be observed when the screen is performed with or without Cdc27 dsRNA. (Goshima et al., 2007)
Gene Ontology: Function, Process & Cellular Component ( 13 )