Taf5l (TATA-box binding protein associated factor 5 like) - Rat Genome Database

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Gene: Taf5l (TATA-box binding protein associated factor 5 like) Rattus norvegicus
Analyze
Symbol: Taf5l
Name: TATA-box binding protein associated factor 5 like
RGD ID: 1310215
Description: Predicted to enable transcription coactivator activity. Predicted to be involved in histone modification; regulation of somatic stem cell population maintenance; and regulation of transcription by RNA polymerase II. Predicted to be located in cytoplasmic ribonucleoprotein granule and nuclear speck. Predicted to be part of SAGA complex and transcription factor TFTC complex. Orthologous to human TAF5L (TATA-box binding protein associated factor 5 like); PARTICIPATES IN RNA polymerase II transcription initiation pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; acrylamide; bisphenol A.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC307927; TAF5-like RNA polymerase II p300/CBP-associated factor-associated factor 65 kDa subunit 5L; TAF5-like RNA polymerase II, p300/CBP-associated factor (PCAF)-associated factor
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21951,991,704 - 52,011,001 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1951,991,708 - 52,011,295 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1958,774,970 - 58,793,905 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.01959,627,362 - 59,646,314 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.01961,701,397 - 61,720,332 (-)NCBIRnor_WKY
Rnor_6.01956,781,854 - 56,801,005 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1956,781,859 - 56,799,445 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01967,497,406 - 67,516,350 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41954,190,450 - 54,209,389 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11954,196,180 - 54,202,880 (-)NCBI
Celera1951,366,198 - 51,385,134 (-)NCBICelera
Cytogenetic Map19q12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
3. GOA pipeline RGD automated data pipeline
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
5. Comprehensive gene review and curation RGD comprehensive gene curation
6. ATAC-king the complexity of SAGA during evolution. Spedale G, etal., Genes Dev. 2012 Mar 15;26(6):527-41. doi: 10.1101/gad.184705.111.
Additional References at PubMed
PMID:10373431   PMID:11564863   PMID:12477932   PMID:31005419  


Genomics

Comparative Map Data
Taf5l
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21951,991,704 - 52,011,001 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1951,991,708 - 52,011,295 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1958,774,970 - 58,793,905 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.01959,627,362 - 59,646,314 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.01961,701,397 - 61,720,332 (-)NCBIRnor_WKY
Rnor_6.01956,781,854 - 56,801,005 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1956,781,859 - 56,799,445 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01967,497,406 - 67,516,350 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41954,190,450 - 54,209,389 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11954,196,180 - 54,202,880 (-)NCBI
Celera1951,366,198 - 51,385,134 (-)NCBICelera
Cytogenetic Map19q12NCBI
TAF5L
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381229,593,134 - 229,626,122 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl1229,593,134 - 229,626,122 (-)EnsemblGRCh38hg38GRCh38
GRCh371229,728,881 - 229,761,869 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361227,795,481 - 227,828,417 (-)NCBINCBI36Build 36hg18NCBI36
Build 341226,035,602 - 226,068,460NCBI
Celera1202,996,790 - 203,029,673 (-)NCBICelera
Cytogenetic Map1q42.13NCBI
HuRef1200,219,088 - 200,252,013 (-)NCBIHuRef
CHM1_11231,001,159 - 231,034,105 (-)NCBICHM1_1
T2T-CHM13v2.01228,972,074 - 229,005,072 (-)NCBIT2T-CHM13v2.0
Taf5l
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm398124,723,049 - 124,748,136 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl8124,723,057 - 124,748,136 (-)EnsemblGRCm39 Ensembl
GRCm388123,996,310 - 124,021,397 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl8123,996,318 - 124,021,397 (-)EnsemblGRCm38mm10GRCm38
MGSCv378126,520,210 - 126,545,209 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv368126,882,400 - 126,907,399 (-)NCBIMGSCv36mm8
Celera8128,276,365 - 128,290,026 (-)NCBICelera
Cytogenetic Map8E2NCBI
Taf5l
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554928,479,194 - 8,517,105 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554928,478,147 - 8,515,988 (+)NCBIChiLan1.0ChiLan1.0
TAF5L
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11210,168,370 - 210,200,903 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1210,168,379 - 210,200,903 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01205,137,767 - 205,170,704 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
TAF5L
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.149,646,516 - 9,674,318 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl49,646,510 - 9,673,148 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha49,637,148 - 9,665,450 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.049,676,557 - 9,704,884 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl49,676,606 - 9,703,979 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.149,680,590 - 9,708,468 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.049,794,777 - 9,823,249 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0410,046,852 - 10,075,167 (+)NCBIUU_Cfam_GSD_1.0
Taf5l
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934443,955,747 - 43,976,730 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493648420,127,235 - 20,143,273 (+)EnsemblSpeTri2.0
SpeTri2.0NW_00493648420,123,039 - 20,143,063 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TAF5L
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1460,255,375 - 60,286,349 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11460,254,502 - 60,286,368 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21465,077,397 - 65,109,260 (+)NCBISscrofa10.2Sscrofa10.2susScr3
TAF5L
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12566,859,264 - 66,892,877 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2566,858,911 - 66,881,081 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605568,720,607 - 68,753,722 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Taf5l
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462477519,496,986 - 19,525,489 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462477519,496,924 - 19,525,495 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Taf5l
64 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:674
Count of miRNA genes:267
Interacting mature miRNAs:333
Transcripts:ENSRNOT00000014930, ENSRNOT00000024491, ENSRNOT00000058652
Prediction methods:Microtar, 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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
724566Uae12Urinary albumin excretion QTL 125urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19218792756457239Rat
1331737Uae29Urinary albumin excretion QTL 295.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19409615555283277Rat
7411549Bw130Body weight QTL 13050.001body mass (VT:0001259)body weight gain (CMO:0000420)191545586057337602Rat
1578764Stresp19Stress response QTL 193.60.001blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)191563020157337602Rat
2298478Eau8Experimental allergic uveoretinitis QTL 80.0163uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)191715443357337602Rat
61350Bp32Blood pressure QTL 320.012arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)192048357557337602Rat
724546Kidm3Kidney mass QTL 33.1kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)192932249057337602Rat
1358200Insglur2Insulin/glucose ratio QTL 24.1blood glucose amount (VT:0000188)serum insulin level (CMO:0000358)193383821455283146Rat
1358200Insglur2Insulin/glucose ratio QTL 24.1blood glucose amount (VT:0000188)serum glucose level (CMO:0000543)193383821455283146Rat
5135224Leukc1Leukocyte quantity QTL 1eosinophil quantity (VT:0002602)blood eosinophil count (CMO:0000033)194434021455283277Rat
2313395Anxrr26Anxiety related response QTL 26aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)194997648153225766Rat

Markers in Region
RH132036  
Rat AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map19q12UniSTS


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

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 3 26 39 33 15 33 1 66 20 39 10
Low 17 18 8 4 8 8 10 8 15 2 1 8
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000024491   ⟹   ENSRNOP00000024491
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1951,991,708 - 52,011,295 (-)Ensembl
Rnor_6.0 Ensembl1956,781,859 - 56,799,445 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000058652   ⟹   ENSRNOP00000055446
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1956,783,574 - 56,789,404 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000107020   ⟹   ENSRNOP00000077727
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1951,991,981 - 52,010,550 (-)Ensembl
RefSeq Acc Id: NM_001107442   ⟹   NP_001100912
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21951,991,709 - 52,010,648 (-)NCBI
Rnor_6.01956,781,859 - 56,800,798 (-)NCBI
Rnor_5.01967,497,406 - 67,516,350 (-)NCBI
RGSC_v3.41954,190,450 - 54,209,389 (-)RGD
Celera1951,366,198 - 51,385,134 (-)RGD
Sequence:
RefSeq Acc Id: XM_006255812   ⟹   XP_006255874
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21951,991,704 - 52,010,401 (-)NCBI
Rnor_6.01956,781,854 - 56,800,613 (-)NCBI
Rnor_5.01967,497,406 - 67,516,350 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008772614   ⟹   XP_008770836
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21951,991,704 - 52,011,001 (-)NCBI
Rnor_6.01956,781,854 - 56,801,005 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008772615   ⟹   XP_008770837
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21951,991,704 - 52,010,702 (-)NCBI
Rnor_6.01956,781,854 - 56,800,830 (-)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_001100912   ⟸   NM_001107442
- UniProtKB: B1H284 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006255874   ⟸   XM_006255812
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_008770836   ⟸   XM_008772614
- Peptide Label: isoform X2
- UniProtKB: B1H284 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008770837   ⟸   XM_008772615
- Peptide Label: isoform X2
- UniProtKB: B1H284 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000024491   ⟸   ENSRNOT00000024491
RefSeq Acc Id: ENSRNOP00000055446   ⟸   ENSRNOT00000058652
RefSeq Acc Id: ENSRNOP00000077727   ⟸   ENSRNOT00000107020
Protein Domains
TFIID_NTD2

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-B1H284-F1-model_v2 AlphaFold B1H284 1-589 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1310215 AgrOrtholog
BioCyc Gene G2FUF-5256 BioCyc
Ensembl Genes ENSRNOG00000018027 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000024491 ENTREZGENE
  ENSRNOP00000024491.5 UniProtKB/TrEMBL
  ENSRNOP00000077727.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000024491 ENTREZGENE
  ENSRNOT00000024491.8 UniProtKB/TrEMBL
  ENSRNOT00000107020.1 UniProtKB/TrEMBL
Gene3D-CATH 1.25.40.500 UniProtKB/TrEMBL
  2.130.10.10 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7380415 IMAGE-MGC_LOAD
  IMAGE:7454090 IMAGE-MGC_LOAD
InterPro G-protein_beta_WD-40_rep UniProtKB/TrEMBL
  Taf5 UniProtKB/TrEMBL
  TAF5L UniProtKB/TrEMBL
  TFIID-su_WD40-assoc_reg UniProtKB/TrEMBL
  TFIID_NTD2_sf UniProtKB/TrEMBL
  WD40/YVTN_repeat-like_dom UniProtKB/TrEMBL
  WD40_repeat UniProtKB/TrEMBL
  WD40_repeat_CS UniProtKB/TrEMBL
  WD40_repeat_dom_sf UniProtKB/TrEMBL
KEGG Report rno:307927 UniProtKB/TrEMBL
MGC_CLONE MGC:112924 IMAGE-MGC_LOAD
  MGC:188626 IMAGE-MGC_LOAD
NCBI Gene 307927 ENTREZGENE
PANTHER PTHR19879 UniProtKB/TrEMBL
  PTHR19879:SF6 UniProtKB/TrEMBL
Pfam TFIID_90kDa UniProtKB/TrEMBL
  WD40 UniProtKB/TrEMBL
PhenoGen Taf5l PhenoGen
PRINTS GPROTEINBRPT UniProtKB/TrEMBL
PROSITE WD_REPEATS_1 UniProtKB/TrEMBL
  WD_REPEATS_2 UniProtKB/TrEMBL
SMART WD40 UniProtKB/TrEMBL
Superfamily-SCOP SSF160897 UniProtKB/TrEMBL
  WD40_like UniProtKB/TrEMBL
UniProt A0A8I5ZJK3_RAT UniProtKB/TrEMBL
  B1H284 ENTREZGENE, UniProtKB/TrEMBL
  F7ERB0_RAT UniProtKB/TrEMBL
  Q4G004_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-11-02 Taf5l  TATA-box binding protein associated factor 5 like  Taf5l  TAF5-like RNA polymerase II, p300/CBP-associated factor (PCAF)-associated factor  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-12-06 Taf5l  TAF5-like RNA polymerase II, p300/CBP-associated factor (PCAF)-associated factor  Taf5l_predicted  TAF5-like RNA polymerase II, p300/CBP-associated factor (PCAF)-associated factor (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-12 Taf5l_predicted  TAF5-like RNA polymerase II, p300/CBP-associated factor (PCAF)-associated factor (predicted)      Symbol and Name status set to approved 70820 APPROVED