TAF1A (TATA-box binding protein associated factor, RNA polymerase I subunit A) - Rat Genome Database

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Gene: TAF1A (TATA-box binding protein associated factor, RNA polymerase I subunit A) Chlorocebus sabaeus
Analyze
Symbol: TAF1A
Name: TATA-box binding protein associated factor, RNA polymerase I subunit A
RGD ID: 18720238
Description: ENCODES a protein that exhibits DNA binding (inferred); INVOLVED IN transcription by RNA polymerase I (inferred); PARTICIPATES IN RNA polymerase I transcription pathway; ASSOCIATED WITH dilated cardiomyopathy (ortholog); Familial Restrictive Cardiomyopathy 6 (ortholog); gastrointestinal stromal tumor (ortholog); FOUND IN microtubule cytoskeleton (inferred); nucleoplasm (inferred); nucleus (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: TATA box-binding protein-associated factor RNA polymerase I subunit A
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: ChlSab1.1 - Green Monkey 1.1 Assembly
Position:
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1256,982,714 - 7,014,699 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl256,982,784 - 7,014,877 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660557,221,347 - 7,253,346 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:22301074  


Genomics

Comparative Map Data
TAF1A
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1256,982,714 - 7,014,699 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl256,982,784 - 7,014,877 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660557,221,347 - 7,253,346 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
TAF1A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381222,554,105 - 222,589,933 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1222,557,902 - 222,589,933 (-)EnsemblGRCh38hg38GRCh38
GRCh371222,731,244 - 222,763,275 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361220,798,288 - 220,829,878 (-)NCBINCBI36Build 36hg18NCBI36
Celera1195,950,756 - 195,982,347 (-)NCBICelera
Cytogenetic Map1q41NCBI
HuRef1193,405,361 - 193,437,394 (-)NCBIHuRef
CHM1_11224,003,859 - 224,035,892 (-)NCBICHM1_1
T2T-CHM13v2.01221,788,155 - 221,823,679 (-)NCBIT2T-CHM13v2.0
Taf1a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391183,170,251 - 183,195,776 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1183,170,325 - 183,191,020 (+)EnsemblGRCm39 Ensembl
GRCm381183,388,885 - 183,410,201 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1183,388,981 - 183,410,198 (+)EnsemblGRCm38mm10GRCm38
Celera1190,389,770 - 190,410,706 (+)NCBICelera
Cytogenetic Map1H5NCBI
Taf1a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81397,543,772 - 97,579,742 (+)NCBIGRCr8
mRatBN7.21395,012,160 - 95,048,131 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1395,029,225 - 95,048,087 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1397,517,521 - 97,552,491 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01398,917,328 - 98,952,276 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01396,099,474 - 96,134,437 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.013101,770,278 - 101,807,975 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl13101,790,865 - 101,806,900 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.013100,975,811 - 101,010,982 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41399,475,709 - 99,484,662 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11399,528,622 - 99,673,546 (+)NCBI
Celera1394,538,515 - 94,573,430 (+)NCBICelera
Cytogenetic Map13q26NCBI
Taf1a
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555201,901,405 - 1,921,900 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049555201,900,802 - 1,921,350 (+)NCBIChiLan1.0ChiLan1.0
TAF1A
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2126,730,903 - 26,768,465 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1126,684,291 - 26,720,548 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01198,227,332 - 198,263,133 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11203,244,796 - 203,276,849 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1203,244,796 - 203,276,872 (-)Ensemblpanpan1.1panPan2
TAF1A
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13816,827,853 - 16,858,506 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3816,828,205 - 16,858,432 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3816,883,269 - 16,914,352 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03816,873,236 - 16,904,338 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3816,873,247 - 16,904,285 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13816,878,704 - 16,909,772 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03817,228,367 - 17,259,637 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03817,522,309 - 17,553,821 (-)NCBIUU_Cfam_GSD_1.0
Taf1a
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934454,751,797 - 54,756,740 (+)NCBIHiC_Itri_2
SpeTri2.0NW_0049366507 - 6,758 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TAF1A
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1011,340,642 - 11,362,432 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11011,340,637 - 11,362,432 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21013,449,697 - 13,471,491 (-)NCBISscrofa10.2Sscrofa10.2susScr3
Taf1a
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248355,121,299 - 5,144,732 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248355,121,496 - 5,144,904 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

endocrine system hemolymphoid system nervous system
High
Medium 1 2
Low 35 20 58
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSCSAT00000013982   ⟹   ENSCSAP00000011963
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1 Ensembl256,982,784 - 7,014,877 (+)Ensembl
RefSeq Acc Id: XM_007988374   ⟹   XP_007986565
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1256,982,714 - 7,014,696 (+)NCBI
Vero_WHO_p1.0NW_0236660557,221,347 - 7,253,346 (+)NCBI
Sequence:
RefSeq Acc Id: XM_007988375   ⟹   XP_007986566
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1256,982,825 - 7,014,696 (+)NCBI
Vero_WHO_p1.0NW_0236660557,221,358 - 7,253,346 (+)NCBI
Sequence:
RefSeq Acc Id: XM_007988376   ⟹   XP_007986567
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1256,982,819 - 7,014,696 (+)NCBI
Vero_WHO_p1.0NW_0236660557,221,377 - 7,253,346 (+)NCBI
Sequence:
RefSeq Acc Id: XM_007988378   ⟹   XP_007986569
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1256,982,714 - 7,014,696 (+)NCBI
Vero_WHO_p1.0NW_0236660557,221,347 - 7,253,346 (+)NCBI
Sequence:
RefSeq Acc Id: XM_007988380   ⟹   XP_007986571
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1256,984,109 - 7,014,699 (+)NCBI
Vero_WHO_p1.0NW_0236660557,222,735 - 7,253,346 (+)NCBI
Sequence:
RefSeq Acc Id: XM_037985545   ⟹   XP_037841473
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_0236660557,221,358 - 7,253,346 (+)NCBI
Reference Protein Sequences
RefSeq Acc Id: XP_007986565   ⟸   XM_007988374
- Peptide Label: isoform X1
- UniProtKB: A0A0D9RTM4 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_007986569   ⟸   XM_007988378
- Peptide Label: isoform X3
RefSeq Acc Id: XP_007986567   ⟸   XM_007988376
- Peptide Label: isoform X2
RefSeq Acc Id: XP_007986566   ⟸   XM_007988375
- Peptide Label: isoform X1
- UniProtKB: A0A0D9RTM4 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_007986571   ⟸   XM_007988380
- Peptide Label: isoform X3
RefSeq Acc Id: ENSCSAP00000011963   ⟸   ENSCSAT00000013982
RefSeq Acc Id: XP_037841473   ⟸   XM_037985545
- Peptide Label: isoform X3


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCSAG00000015887 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCSAT00000013982.1 UniProtKB/TrEMBL
InterPro RNA_pol_I_TAF1A/TAFI48 UniProtKB/TrEMBL
  TAF1A-like UniProtKB/TrEMBL
KEGG Report csab:103230042 UniProtKB/TrEMBL
NCBI Gene TAF1A ENTREZGENE
PANTHER TATA BOX-BINDING PROTEIN ASSOCIATED FACTOR RNA POLYMERASE I SUBUNIT A UniProtKB/TrEMBL
  TATA BOX-BINDING PROTEIN-ASSOCIATED FACTOR RNA POLYMERASE I SUBUNIT A UniProtKB/TrEMBL
Pfam TAF1_subA UniProtKB/TrEMBL
PIRSF TAFI48 UniProtKB/TrEMBL
UniProt A0A0D9RTM4 ENTREZGENE, UniProtKB/TrEMBL