U2af1 (U2 small nuclear RNA auxiliary factor 1) - Rat Genome Database

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Gene: U2af1 (U2 small nuclear RNA auxiliary factor 1) Chinchilla lanigera
Analyze
Symbol: U2af1
Name: U2 small nuclear RNA auxiliary factor 1
RGD ID: 8804822
Description: ENCODES a protein that exhibits RS domain binding (ortholog); PARTICIPATES IN spliceosome pathway; ASSOCIATED WITH acute myeloid leukemia (ortholog); cataract 9 multiple types (ortholog); developmental and epileptic encephalopathy 30 (ortholog); FOUND IN catalytic step 2 spliceosome (ortholog); nuclear speck (ortholog); nucleoplasm (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: splicing factor U2AF 35 kDa subunit
RGD Orthologs
Human
Mouse
Rat
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: ChiLan1.0 - Chinchilla ChiLan1.0 Assembly
Position:
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540738,895,711 - 38,909,820 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495540738,895,741 - 38,909,820 (+)NCBIChiLan1.0ChiLan1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Transitive Annotation Pipeline Automated assignment of GO, PW and RDO ISO annotations across species
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
U2af1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540738,895,711 - 38,909,820 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495540738,895,741 - 38,909,820 (+)NCBIChiLan1.0ChiLan1.0
U2AF1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382143,092,956 - 43,107,578 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2143,092,956 - 43,107,570 (-)EnsemblGRCh38hg38GRCh38
GRCh372144,513,066 - 44,527,688 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362143,386,135 - 43,400,757 (-)NCBINCBI36Build 36hg18NCBI36
Build 342143,386,135 - 43,400,703NCBI
Celera2129,665,729 - 29,680,351 (-)NCBICelera
Cytogenetic Map21q22.3NCBI
HuRef2129,931,179 - 29,945,801 (-)NCBIHuRef
CHM1_12144,073,930 - 44,088,542 (-)NCBICHM1_1
T2T-CHM13v2.02141,484,016 - 41,498,649 (-)NCBIT2T-CHM13v2.0
U2af1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391731,866,055 - 31,878,122 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1731,866,055 - 31,877,866 (-)EnsemblGRCm39 Ensembl
GRCm381731,647,081 - 31,659,148 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1731,647,081 - 31,658,892 (-)EnsemblGRCm38mm10GRCm38
MGSCv371731,784,027 - 31,795,699 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361731,375,793 - 31,387,425 (-)NCBIMGSCv36mm8
Celera1732,564,314 - 32,575,985 (-)NCBICelera
Cytogenetic Map17B1NCBI
cM Map1717.02NCBI
U2af1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8209,744,206 - 9,755,146 (-)NCBIGRCr8
mRatBN7.2209,742,904 - 9,753,840 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl209,742,905 - 9,753,832 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx2010,444,482 - 10,455,368 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0209,805,670 - 9,816,556 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.02010,274,178 - 10,285,068 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.02010,396,652 - 10,407,564 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2010,396,621 - 10,407,554 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02012,582,585 - 12,593,487 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera2011,256,755 - 11,267,643 (-)NCBICelera
Cytogenetic Map20p12NCBI
U2AF1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22239,148,192 - 39,162,728 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12134,001,084 - 34,015,646 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02129,399,601 - 29,414,156 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12142,707,738 - 42,719,086 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2142,707,738 - 42,719,086 (-)Ensemblpanpan1.1panPan2
U2AF1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13137,263,265 - 37,276,710 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3136,412,908 - 36,426,355 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03136,805,348 - 36,818,994 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3136,805,359 - 36,818,952 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13136,672,392 - 36,686,045 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03136,651,910 - 36,665,348 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03137,149,648 - 37,163,284 (-)NCBIUU_Cfam_GSD_1.0
U2af1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440497136,500,032 - 36,511,642 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936500958,256 - 967,829 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936500937,537 - 967,791 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
U2AF1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl13206,244,773 - 206,257,702 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.113206,244,772 - 206,257,697 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
LOC103219520
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1286,949,910 - 86,964,655 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl286,950,056 - 86,964,579 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605414,950,099 - 14,964,875 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
U2af1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474527,647,597 - 27,660,809 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462474527,647,672 - 27,660,599 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression


Sequence


RefSeq Acc Id: ENSCLAT00000014019   ⟹   ENSCLAP00000013863
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_00495540738,895,711 - 38,909,820 (+)Ensembl
RefSeq Acc Id: ENSCLAT00000014020   ⟹   ENSCLAP00000013864
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_00495540738,895,711 - 38,909,820 (+)Ensembl
RefSeq Acc Id: XM_005375793   ⟹   XP_005375850
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_00495540738,895,742 - 38,909,820 (+)NCBI
Sequence:
RefSeq Acc Id: XM_005375794   ⟹   XP_005375851
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_00495540738,895,741 - 38,909,820 (+)NCBI
Sequence:
RefSeq Acc Id: XM_013505025   ⟹   XP_013360479
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_00495540738,902,890 - 38,909,820 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_005375850 (Get FASTA)   NCBI Sequence Viewer  
  XP_005375851 (Get FASTA)   NCBI Sequence Viewer  
  XP_013360479 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCLAP00000013863
  ENSCLAP00000013863.1
  ENSCLAP00000013864
  ENSCLAP00000013864.1
RefSeq Acc Id: XP_005375851   ⟸   XM_005375794
- Peptide Label: isoform X2
- UniProtKB: A0A8C2VK84 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_005375850   ⟸   XM_005375793
- Peptide Label: isoform X1
- UniProtKB: A0A8C2VDP4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_013360479   ⟸   XM_013505025
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: ENSCLAP00000013863   ⟸   ENSCLAT00000014019
RefSeq Acc Id: ENSCLAP00000013864   ⟸   ENSCLAT00000014020
Protein Domains
C3H1-type   RRM


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCLAG00000009589 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCLAT00000014019 ENTREZGENE
  ENSCLAT00000014019.1 UniProtKB/TrEMBL
  ENSCLAT00000014020 ENTREZGENE
  ENSCLAT00000014020.1 UniProtKB/TrEMBL
Gene3D-CATH 3.30.70.330 UniProtKB/TrEMBL
InterPro Nucleotide-bd_a/b_plait_sf UniProtKB/TrEMBL
  RBD_domain_sf UniProtKB/TrEMBL
  RRM_dom UniProtKB/TrEMBL
  RRM_dom_euk UniProtKB/TrEMBL
  U2AF_small UniProtKB/TrEMBL
  Znf_CCCH UniProtKB/TrEMBL
NCBI Gene U2af1 ENTREZGENE
PANTHER PTHR12620 UniProtKB/TrEMBL
  SPLICING FACTOR U2AF 35 KDA SUBUNIT-RELATED UniProtKB/TrEMBL
Pfam RRM_1 UniProtKB/TrEMBL
  zf-CCCH UniProtKB/TrEMBL
PRINTS U2AUXFACTOR UniProtKB/TrEMBL
PROSITE RRM UniProtKB/TrEMBL
  ZF_C3H1 UniProtKB/TrEMBL
SMART RRM UniProtKB/TrEMBL
  RRM_1 UniProtKB/TrEMBL
  ZnF_C3H1 UniProtKB/TrEMBL
Superfamily-SCOP SSF54928 UniProtKB/TrEMBL
UniProt A0A8C2VDP4 ENTREZGENE, UniProtKB/TrEMBL
  A0A8C2VK84 ENTREZGENE, UniProtKB/TrEMBL