TAF4B (TATA-box binding protein associated factor 4b) - Rat Genome Database

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Gene: TAF4B (TATA-box binding protein associated factor 4b) Chlorocebus sabaeus
Analyze
Symbol: TAF4B
Name: TATA-box binding protein associated factor 4b
RGD ID: 18645357
Description: ENCODES a protein that exhibits DNA binding (inferred); NF-kappaB binding (inferred); protein heterodimerization activity (inferred); INVOLVED IN positive regulation of stem cell proliferation (ortholog); ASSOCIATED WITH genetic disease (ortholog); intellectual disability (ortholog); spermatogenic failure 13 (ortholog); FOUND IN fibrillar center (inferred); nucleoplasm (inferred); nucleus (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: transcription initiation factor TFIID subunit 4B
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
ChlSab1.11854,198,730 - 54,357,101 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1854,200,414 - 54,356,611 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605028,927,788 - 29,089,238 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
TAF4B
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11854,198,730 - 54,357,101 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1854,200,414 - 54,356,611 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605028,927,788 - 29,089,238 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
TAF4B
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381826,226,445 - 26,391,685 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1826,226,445 - 26,391,685 (+)EnsemblGRCh38hg38GRCh38
GRCh371823,806,409 - 23,971,649 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361822,060,407 - 22,225,647 (+)NCBINCBI36Build 36hg18NCBI36
Build 341822,061,093 - 22,224,126NCBI
Celera1820,617,414 - 20,782,254 (+)NCBICelera
Cytogenetic Map18q11.2NCBI
HuRef1820,657,331 - 20,821,816 (+)NCBIHuRef
CHM1_11823,733,723 - 23,899,102 (+)NCBICHM1_1
T2T-CHM13v2.01826,421,246 - 26,585,805 (+)NCBIT2T-CHM13v2.0
Taf4b
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391814,916,302 - 15,035,160 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1814,916,302 - 15,033,416 (+)EnsemblGRCm39 Ensembl
GRCm381814,783,201 - 14,960,424 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1814,783,245 - 14,900,359 (+)EnsemblGRCm38mm10GRCm38
MGSCv371814,941,754 - 15,058,868 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361814,926,263 - 15,043,377 (+)NCBIMGSCv36mm8
Celera1815,005,590 - 15,122,615 (+)NCBICelera
Cytogenetic Map18A1NCBI
cM Map188.28NCBI
Taf4b
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8186,227,299 - 6,360,970 (+)NCBIGRCr8
mRatBN7.2185,952,737 - 6,086,408 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl185,952,769 - 6,068,307 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.0186,206,939 - 6,338,794 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl186,207,280 - 6,318,219 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0186,168,668 - 6,280,010 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4186,071,848 - 6,168,486 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera185,982,341 - 6,115,631 (+)NCBICelera
Cytogenetic Map18p13NCBI
Taf4b
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540214,296,202 - 14,425,321 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495540214,296,202 - 14,425,298 (+)NCBIChiLan1.0ChiLan1.0
TAF4B
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21743,653,166 - 43,820,276 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11829,345,762 - 29,513,872 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01819,480,844 - 19,648,936 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11823,089,239 - 23,254,247 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1823,089,736 - 23,254,518 (+)Ensemblpanpan1.1panPan2
TAF4B
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1762,276,885 - 62,402,838 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl762,278,061 - 62,402,375 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha761,710,878 - 61,836,411 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0762,326,267 - 62,452,063 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl762,320,097 - 62,452,478 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1761,998,731 - 62,124,071 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0762,011,647 - 62,137,195 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0762,314,451 - 62,440,300 (-)NCBIUU_Cfam_GSD_1.0
Taf4b
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494458,288,608 - 58,419,879 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365505,396,188 - 5,527,556 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365505,396,239 - 5,527,540 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TAF4B
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl6110,855,636 - 110,971,994 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.16110,855,636 - 110,972,798 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.26103,817,752 - 103,934,684 (+)NCBISscrofa10.2Sscrofa10.2susScr3
Taf4b
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247706,031,028 - 6,162,937 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247705,955,159 - 6,163,060 (-)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 14
Low 22 20 60
Below cutoff

Sequence


RefSeq Acc Id: ENSCSAT00000015909   ⟹   ENSCSAP00000013835
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1 Ensembl1854,200,414 - 54,356,611 (-)Ensembl
RefSeq Acc Id: XM_007974399   ⟹   XP_007972590
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.11854,198,730 - 54,357,101 (-)NCBI
Vero_WHO_p1.0NW_02366605028,928,111 - 29,089,213 (-)NCBI
Sequence:
RefSeq Acc Id: XM_037982426   ⟹   XP_037838354
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_02366605028,927,788 - 29,089,237 (-)NCBI
RefSeq Acc Id: XM_037982427   ⟹   XP_037838355
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_02366605028,927,788 - 29,089,238 (-)NCBI
Protein Sequences
Protein RefSeqs XP_007972590 (Get FASTA)   NCBI Sequence Viewer  
  XP_037838354 (Get FASTA)   NCBI Sequence Viewer  
  XP_037838355 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCSAP00000013835.1
RefSeq Acc Id: XP_007972590   ⟸   XM_007974399
- Peptide Label: isoform X2
- UniProtKB: A0A0D9RYZ6 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSCSAP00000013835   ⟸   ENSCSAT00000015909
RefSeq Acc Id: XP_037838355   ⟸   XM_037982427
- Peptide Label: isoform X3
- UniProtKB: A0A0D9RYZ6 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_037838354   ⟸   XM_037982426
- Peptide Label: isoform X1
- UniProtKB: A0A0D9RYZ6 (UniProtKB/TrEMBL)


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCSAG00000017814 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCSAT00000015909.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.20.10 UniProtKB/TrEMBL
  1.20.120.1110 UniProtKB/TrEMBL
InterPro Histone-fold UniProtKB/TrEMBL
  TAF4 UniProtKB/TrEMBL
  TAF4 UniProtKB/TrEMBL
  TAFH/NHR1_dom_sf UniProtKB/TrEMBL
  TAFH_NHR1 UniProtKB/TrEMBL
NCBI Gene TAF4B ENTREZGENE
PANTHER PTHR15138 UniProtKB/TrEMBL
  TRANSCRIPTION INITIATION FACTOR TFIID SUBUNIT 4B UniProtKB/TrEMBL
Pfam TAF4 UniProtKB/TrEMBL
  TAFH UniProtKB/TrEMBL
PROSITE TAFH UniProtKB/TrEMBL
SMART TAFH UniProtKB/TrEMBL
Superfamily-SCOP SSF158553 UniProtKB/TrEMBL
  SSF47113 UniProtKB/TrEMBL
UniProt A0A0D9RYZ6 ENTREZGENE, UniProtKB/TrEMBL