Taf13 (TATA-box binding protein associated factor 13) - Rat Genome Database

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Gene: Taf13 (TATA-box binding protein associated factor 13) Mus musculus
Analyze
Symbol: Taf13
Name: TATA-box binding protein associated factor 13
RGD ID: 1313407
MGI Page MGI
Description: Enables DNA binding activity. Predicted to be involved in RNA polymerase II preinitiation complex assembly; mRNA transcription by RNA polymerase II; and positive regulation of transcription initiation by RNA polymerase II. Located in nucleus. Is expressed in cranial ganglion; limb mesenchyme; sensory organ; submandibular gland primordium; and tail dorsal root ganglion. Human ortholog(s) of this gene implicated in autosomal recessive intellectual developmental disorder 60. Orthologous to human TAF13 (TATA-box binding protein associated factor 13).
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: 1810004N01Rik; 2010309N11Rik; AI847295; TAF(II)18; TAF13 RNA polymerase II, TATA box binding protein (TBP)-associated factor; TAF13 RNA polymerase II, TATA box-binding protein-associated factor; TAFII-18; TAFII18; TBP-associated factor, RNA polymerase II, K, 18kD; transcription initiation factor TFIID 18 kDa subunit; transcription initiation factor TFIID subunit 13
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Related Pseudogenes: Gm11189  
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm393108,479,015 - 108,489,384 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl3108,479,014 - 108,490,538 (+)EnsemblGRCm39 Ensembl
GRCm383108,571,699 - 108,582,068 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl3108,571,698 - 108,583,222 (+)EnsemblGRCm38mm10GRCm38
MGSCv373108,374,617 - 108,384,986 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv363108,699,755 - 108,710,124 (+)NCBIMGSCv36mm8
Celera3110,906,500 - 110,916,864 (+)NCBICelera
Cytogenetic Map3F3NCBI
cM Map347.34NCBI
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
Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
References

References - curated
# Reference Title Reference Citation
1. Functional annotation of a full-length mouse cDNA collection. Kawai J, etal., Nature. 2001 Feb 8;409(6821):685-90.
2. Structural bioinformatics of the general transcription factor TFIID. Malkowska M, etal., Biochimie. 2013 Apr;95(4):680-91. doi: 10.1016/j.biochi.2012.10.024. Epub 2012 Nov 9.
3. MGDs mouse GO annotations MGD data from the GO Consortium
4. Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs. Okazaki Y, etal., Nature. 2002 Dec 5;420(6915):563-73.
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:8889548   PMID:10349636   PMID:10922068   PMID:11042159   PMID:11076861   PMID:11591653   PMID:12477932   PMID:14610273   PMID:15489334   PMID:16141072   PMID:16141073   PMID:18287559  
PMID:18722179   PMID:18799693   PMID:20059953   PMID:20211142   PMID:21267068   PMID:21873635   PMID:22323595   PMID:25209997   PMID:27026076   PMID:28893950   PMID:32968282   PMID:35361962  


Genomics

Comparative Map Data
Taf13
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm393108,479,015 - 108,489,384 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl3108,479,014 - 108,490,538 (+)EnsemblGRCm39 Ensembl
GRCm383108,571,699 - 108,582,068 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl3108,571,698 - 108,583,222 (+)EnsemblGRCm38mm10GRCm38
MGSCv373108,374,617 - 108,384,986 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv363108,699,755 - 108,710,124 (+)NCBIMGSCv36mm8
Celera3110,906,500 - 110,916,864 (+)NCBICelera
Cytogenetic Map3F3NCBI
cM Map347.34NCBI
TAF13
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381109,064,140 - 109,076,003 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1109,062,496 - 109,076,012 (-)EnsemblGRCh38hg38GRCh38
GRCh371109,606,762 - 109,618,625 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361109,408,521 - 109,420,147 (-)NCBINCBI36Build 36hg18NCBI36
Celera1107,876,546 - 107,888,009 (-)NCBICelera
Cytogenetic Map1p13.3NCBI
HuRef1107,499,992 - 107,511,685 (-)NCBIHuRef
CHM1_11109,721,816 - 109,733,269 (-)NCBICHM1_1
T2T-CHM13v2.01109,097,179 - 109,108,873 (-)NCBIT2T-CHM13v2.0
Taf13
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr82198,893,332 - 198,903,994 (+)NCBIGRCr8
mRatBN7.22196,205,219 - 196,215,882 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2196,205,243 - 196,215,878 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx2203,849,122 - 203,859,791 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.02201,731,079 - 201,741,772 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.02196,548,049 - 196,558,740 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.02211,359,623 - 211,370,285 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2211,359,623 - 211,370,284 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02230,830,628 - 230,841,318 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42204,136,548 - 204,147,904 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.12204,100,497 - 204,110,659 (+)NCBI
Celera2188,850,690 - 188,861,275 (+)NCBICelera
Cytogenetic Map2q34NCBI
Taf13
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495543512,486,126 - 12,496,894 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495543512,488,578 - 12,496,894 (-)NCBIChiLan1.0ChiLan1.0
TAF13
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21118,225,570 - 118,241,301 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11117,388,185 - 117,401,364 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01111,441,202 - 111,452,773 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11110,606,301 - 110,617,745 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1110,604,654 - 110,617,808 (-)Ensemblpanpan1.1panPan2
TAF13
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1642,716,158 - 42,723,888 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl642,715,951 - 42,799,271 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha645,490,769 - 45,498,498 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0643,047,539 - 43,061,304 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl643,047,507 - 43,133,404 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1642,778,200 - 42,786,143 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0642,736,352 - 42,744,307 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0643,171,527 - 43,179,496 (+)NCBIUU_Cfam_GSD_1.0
Taf13
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440505819,490,688 - 19,500,874 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936704613,261 - 623,401 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936704613,261 - 623,407 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TAF13
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl4110,971,573 - 110,992,018 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.14110,980,816 - 110,991,941 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.24121,466,015 - 121,486,410 (+)NCBISscrofa10.2Sscrofa10.2susScr3
TAF13
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12024,505,023 - 24,516,018 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2024,463,961 - 24,517,642 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603833,828,676 - 33,839,712 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Taf13
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247724,827,514 - 4,841,646 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247724,829,110 - 4,841,661 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Taf13
371 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:987
Count of miRNA genes:553
Interacting mature miRNAs:652
Transcripts:ENSMUST00000056292, ENSMUST00000131814, ENSMUST00000139603, ENSMUST00000143054
Prediction methods:Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
26884436Zlq3_mzygomatic length QTL 3, 10 week (mouse)33265060142405761Mouse
26884427Cvht4_mcranial vault height 4, 10 week (mouse)316054164109707316Mouse
13207570Tcq12_mtotal cholesterol QTL 12 (mouse)316504164130163649Mouse
26884422Cvht7_mcranial vault height 7, 16 week (mouse)328954149118893649Mouse
1302056Orgwq4_morgan weight QTL 4 (mouse)Not determined330067588147304689Mouse
1301705Sles3_msystemic lupus erythmatosus suppressor 3 (mouse)Not determined337174862143353183Mouse
13208566Bmiq5_mbody mass index QTL 5 (mouse)340954435115793649Mouse
26884382Bzwq1_mbi-zygomatic width QTL 1, 5 week (mouse)352207421137205761Mouse
25314313Syncl1_msynaptonemal complex length 1 (mouse)367907333128393649Mouse
1300595Tmevd2_mTheiler's murine encephalomyelitis virus induced demyelinating disease susceptibility 2 (mouse)Not determined375463302109463549Mouse
1301392Eae3_msusceptibility to experimental allergic encephalomyelitis 3 (mouse)Not determined379548730113548837Mouse
1301947Pcfm3_mperiosteal circumference and femur length 3 (mouse)Not determined381084652115084797Mouse
1301904Iba2_minduction of brown adipocytes 2 (mouse)Not determined382147043116147184Mouse
11041900Lmr11a_mleishmaniasis resistance 11a (mouse)383463991117464137Mouse
11039510Ltpr3d_mLeishmania tropica response 3d (mouse)383463991117464137Mouse
11039511Ltpr3c_mLeishmania tropica response 3c (mouse)383463991117464137Mouse
11039507Ltpr3g_mLeishmania tropica response 3g (mouse)383463991117464137Mouse
11039508Ltpr3f_mLeishmania tropica response 3f (mouse)383463991117464137Mouse
11039509Ltpr3e_mLeishmania tropica response 3e (mouse)383463991117464137Mouse
11039512Ltpr3b_mLeishmania tropica response 3b (mouse)383463991117464137Mouse
1301272Cfsw1_mcystic fibrosis survival to weaning 1 (mouse)Not determined383882912117883044Mouse
4142099Cq3_mcholesterol QTL 3 (mouse)Not determined384888918118889067Mouse
14746984Manh54_mmandible shape 54 (mouse)385289152119289152Mouse
1357583Sle18_msystematic lupus erythematosus susceptibility 18 (mouse)Not determined387208904125316236Mouse
12738440Twq3_mtestis weight QTL 3 (mouse)387228015121228015Mouse
4142178Ctrq2_mC. trachomatis resistance QTL 2 (mouse)Not determined389139967137453008Mouse
10766455Sle22_msystematic lupus erythematosus susceptibility 22 (mouse)390376936124377072Mouse
14747001Mancz4_mmandible centroid size 4 (mouse)390378017124378017Mouse
1302052Etohcta4_methanol conditioned taste aversion 4 (mouse)Not determined391000105125008748Mouse
1301349Pgia26_mproteoglycan induced arthritis 26 (mouse)Not determined392251533126251650Mouse
27226732Tibmd3_mtibia midshaft diameter 3, 10 week (mouse)396607316147805636Mouse
10043955Wt10q4_mbody weight, 10 weeks, QTL 4 (mouse)Not determined398624041132624197Mouse
11533920Mvb3_mmodifier of vibrator 3 (mouse)398635284132635383Mouse
12792984Modn1_mmodifier of Dstn neovascularization 1 (mouse)398635284132635383Mouse
1302114Tbs1_mtuberculosis severity 1 (mouse)Not determined398924105132924250Mouse
1300752Ap6q_malcohol preference 6 QTL (mouse)Not determined3100372912147045722Mouse
26884419Bzwq6_mbi-zygomatic width QTL 6, 10 week (mouse)3100607316137205761Mouse
27226733Tibmd6_mtibia midshaft diameter 6, 16 week (mouse)3101307316149805637Mouse
1301805Mors2_mmodifier of obesity related sterility 2 (mouse)Not determined3103482659137482783Mouse
1357599msrvh1_mmodifier of susceptibility to renal vascular hypertrophy/hyperplasia 1 (mouse)Not determined3107376936115624197Mouse
8655599Cia5c_mcollagen induced arthritis QTL 5c (mouse)Not determined3107376936125316237Mouse
1302093Orgwq5_morgan weight QTL 5 (mouse)Not determined3107376936147304689Mouse

Markers in Region
UniSTS:234805  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm383108,579,463 - 108,579,664UniSTSGRCm38
MGSCv373108,382,381 - 108,382,582UniSTSGRCm37
Celera3110,914,259 - 110,914,460UniSTS
Cytogenetic Map3F3UniSTS
AI847295  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map3F3UniSTS
Whitehead/MRC_RH31277.43UniSTS


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSMUST00000056292
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl3108,479,015 - 108,489,385 (+)Ensembl
GRCm38.p6 Ensembl3108,571,699 - 108,582,069 (+)Ensembl
RefSeq Acc Id: ENSMUST00000131814
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl3108,479,014 - 108,488,686 (+)Ensembl
GRCm38.p6 Ensembl3108,571,698 - 108,581,370 (+)Ensembl
RefSeq Acc Id: ENSMUST00000139603
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl3108,479,027 - 108,480,620 (+)Ensembl
GRCm38.p6 Ensembl3108,571,711 - 108,573,304 (+)Ensembl
RefSeq Acc Id: ENSMUST00000143054   ⟹   ENSMUSP00000121346
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl3108,479,015 - 108,490,538 (+)Ensembl
GRCm38.p6 Ensembl3108,571,699 - 108,583,222 (+)Ensembl
RefSeq Acc Id: NM_025444   ⟹   NP_079720
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm393108,479,015 - 108,489,384 (+)NCBI
GRCm383108,571,699 - 108,582,068 (+)ENTREZGENE
MGSCv373108,374,617 - 108,384,986 (+)RGD
Celera3110,906,500 - 110,916,864 (+)RGD
cM Map3 ENTREZGENE
Sequence:
Protein Sequences
Protein RefSeqs NP_079720 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH21447 (Get FASTA)   NCBI Sequence Viewer  
  BAB24972 (Get FASTA)   NCBI Sequence Viewer  
  BAC36408 (Get FASTA)   NCBI Sequence Viewer  
  BAE35671 (Get FASTA)   NCBI Sequence Viewer  
  EDL01976 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSMUSP00000121346
  ENSMUSP00000121346.2
GenBank Protein P61216 (Get FASTA)   NCBI Sequence Viewer  
Reference Protein Sequences
RefSeq Acc Id: NP_079720   ⟸   NM_025444
- UniProtKB: Q3TVE8 (UniProtKB/Swiss-Prot),   P61216 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSMUSP00000121346   ⟸   ENSMUST00000143054
Protein Domains
Histone-fold

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P61216-F1-model_v2 AlphaFold P61216 1-124 view protein structure

Promoters
RGD ID:6834525
Promoter ID:MM_KWN:35794
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:3T3L1_Day0,   3T3L1_Day1,   3T3L1_Day2,   3T3L1_Day3,   3T3L1_Day4,   3T3L1_Day6,   BoneMarrow_0Hour,   BoneMarrow_2Hour,   BoneMarrow_4Hour,   Brain,   ES_Cell,   Kidney,   Liver,   Lung,   MEF_B4,   MEF_B6,   Spleen
Transcripts:OTTMUST00000016759,   OTTMUST00000016760,   OTTMUST00000016761,   OTTMUST00000016762
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv363108,374,421 - 108,374,921 (+)MPROMDB
RGD ID:6882090
Promoter ID:EPDNEW_M4496
Type:single initiation site
Name:Taf13_1
Description:Mus musculus TATA-box binding protein associated factor 13 ,mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm383108,571,701 - 108,571,761EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1913500 AgrOrtholog
Ensembl Genes ENSMUSG00000048100 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000143054 ENTREZGENE
  ENSMUST00000143054.2 UniProtKB/Swiss-Prot
Gene3D-CATH 1.10.20.10 UniProtKB/Swiss-Prot
InterPro Histone-fold UniProtKB/Swiss-Prot
  TFIID_TAF13 UniProtKB/Swiss-Prot
KEGG Report mmu:99730 UniProtKB/Swiss-Prot
MGD MGI:1913500 ENTREZGENE
NCBI Gene 99730 ENTREZGENE
PANTHER PTHR11380 UniProtKB/Swiss-Prot
  TRANSCRIPTION INITIATION FACTOR TFIID SUBUNIT 13 UniProtKB/Swiss-Prot
Pfam TFIID-18kDa UniProtKB/Swiss-Prot
PhenoGen Taf13 PhenoGen
Superfamily-SCOP SSF47113 UniProtKB/Swiss-Prot
UniProt P61216 ENTREZGENE
  Q3TVE8 ENTREZGENE
  TAF13_MOUSE UniProtKB/Swiss-Prot
UniProt Secondary Q3TVE8 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-02-17 Taf13  TATA-box binding protein associated factor 13    TAF13 RNA polymerase II, TATA box binding protein (TBP)-associated factor  Symbol and/or name change 5135510 APPROVED