Thap6 (THAP domain containing 6) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models   new Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Gene: Thap6 (THAP domain containing 6) Rattus norvegicus
Analyze
Symbol: Thap6
Name: THAP domain containing 6
RGD ID: 1310094
Description: Predicted to enable DNA binding activity. Predicted to be located in microtubule cytoskeleton. Orthologous to human THAP6 (THAP domain containing 6); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; bisphenol A; 2-palmitoylglycerol (ortholog).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC305244; THAP domain-containing protein 6
RGD Orthologs
Human
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
GRCr81416,385,579 - 16,397,735 (-)NCBIGRCr8
mRatBN7.21416,092,919 - 16,113,528 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1416,101,312 - 16,113,448 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1416,116,782 - 16,126,962 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01417,435,673 - 17,445,853 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01416,127,810 - 16,137,990 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01417,595,865 - 17,616,192 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1417,606,001 - 17,616,170 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01417,523,451 - 17,533,559 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41417,673,407 - 17,683,579 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11417,673,352 - 17,682,802 (-)NCBI
Celera1415,495,699 - 15,505,866 (-)NCBICelera
Cytogenetic Map14p22NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. GOA pipeline RGD automated data pipeline
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions

Genomics

Comparative Map Data
Thap6
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81416,385,579 - 16,397,735 (-)NCBIGRCr8
mRatBN7.21416,092,919 - 16,113,528 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1416,101,312 - 16,113,448 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1416,116,782 - 16,126,962 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01417,435,673 - 17,445,853 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01416,127,810 - 16,137,990 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01417,595,865 - 17,616,192 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1417,606,001 - 17,616,170 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01417,523,451 - 17,533,559 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41417,673,407 - 17,683,579 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11417,673,352 - 17,682,802 (-)NCBI
Celera1415,495,699 - 15,505,866 (-)NCBICelera
Cytogenetic Map14p22NCBI
THAP6
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38475,513,908 - 75,547,328 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl475,513,946 - 75,550,473 (+)EnsemblGRCh38hg38GRCh38
GRCh37476,439,683 - 76,472,538 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36476,658,678 - 76,674,260 (+)NCBINCBI36Build 36hg18NCBI36
Build 34476,797,820 - 76,811,145NCBI
Celera473,735,788 - 73,751,370 (+)NCBICelera
Cytogenetic Map4q21.1NCBI
HuRef472,186,214 - 72,201,802 (+)NCBIHuRef
CHM1_1476,416,437 - 76,432,019 (+)NCBICHM1_1
T2T-CHM13v2.0478,854,102 - 78,887,492 (+)NCBIT2T-CHM13v2.0
Thap6
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554741,481,495 - 1,491,441 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554741,481,669 - 1,491,904 (+)NCBIChiLan1.0ChiLan1.0
THAP6
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2354,543,276 - 54,558,928 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1454,732,637 - 54,748,278 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0448,675,606 - 48,691,255 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1454,510,612 - 54,526,644 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl454,510,612 - 54,526,107 (-)Ensemblpanpan1.1panPan2
THAP6
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13294,055 - 111,365 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3294,162 - 114,744 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3241,770,573 - 41,788,209 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.032115,829 - 133,518 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl32116,071 - 136,897 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.132112,898 - 130,417 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03265,996 - 83,689 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03240,088,845 - 40,106,361 (-)NCBIUU_Cfam_GSD_1.0
Thap6
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440528511,969,750 - 11,984,574 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936598421,757 - 437,051 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936598421,809 - 436,571 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
THAP6
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl871,181,972 - 71,200,837 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1871,181,952 - 71,200,844 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2875,305,763 - 75,324,655 (-)NCBISscrofa10.2Sscrofa10.2susScr3
THAP6
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1724,025,146 - 24,040,673 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl724,026,153 - 24,040,904 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660372,352,612 - 2,368,212 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Thap6
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624730311,964 - 321,832 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624730310,633 - 322,354 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Thap6
156 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:89
Count of miRNA genes:76
Interacting mature miRNAs:79
Transcripts:ENSRNOT00000003431
Prediction methods:Microtar, Miranda, Rnahybrid
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
2300159Bmd61Bone mineral density QTL 615.30.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)14126541967Rat
2300183Bmd60Bone mineral density QTL 605.70.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)14126541967Rat
619619Rf4Renal disease susceptibility QTL 44.10.002urine total protein amount (VT:0000032)urine protein excretion rate to body weight ratio (CMO:0001099)14132754612Rat
634352Apr6Acute phase response QTL 63.7blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)14141131407Rat
70204Niddm20Non-insulin dependent diabetes mellitus QTL 205.10.000008blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)14121760616960180Rat
2293089Iddm31Insulin dependent diabetes mellitus QTL 314.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)14381307418274691Rat
2293089Iddm31Insulin dependent diabetes mellitus QTL 314.7blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)14381307418274691Rat
1300114Srn2Serum renin concentration QTL 23.27blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)14381307421217635Rat
70195Mcs8Mammary carcinoma susceptibility QTL 84.28mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)14381307424531477Rat
1331740Bw26Body weight QTL 263.028body mass (VT:0001259)body weight (CMO:0000012)14381307430767156Rat
1581500Renag1Renal agenesis QTL 1kidney development trait (VT:0000527)percentage of study population developing unilateral renal agenesis during a period of time (CMO:0000940)14817066868298175Rat
1358296Ael3Aortic elastin QTL 33.70.00051aorta elastin amount (VT:0003905)aortic elastin14826709053267090Rat
2302045Pia39Pristane induced arthritis QTL 394.90.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G2a level (CMO:0002116)14826709053267090Rat
731183Pia20Pristane induced arthritis QTL 203.55joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)14908897839057237Rat
2302277Gluco38Glucose level QTL 385.8blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)141103062228035204Rat
631839Niddm37Non-insulin dependent diabetes mellitus QTL 373.37blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)141103062295876975Rat
631212Bw5Body weight QTL55.43retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)141103081230320092Rat
1300140Srn3Serum renin concentration QTL 33.19blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)141487516830883947Rat


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 6 20 12 14 12 1 2 46 23 35 11 1
Low 3 37 37 29 5 29 7 9 28 12 6 7
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000090938   ⟹   ENSRNOP00000071541
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1416,101,312 - 16,113,448 (-)Ensembl
Rnor_6.0 Ensembl1417,606,001 - 17,616,170 (-)Ensembl
RefSeq Acc Id: NM_001107209   ⟹   NP_001100679
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81416,387,566 - 16,397,735 (-)NCBI
mRatBN7.21416,103,296 - 16,113,465 (-)NCBI
Rnor_6.01417,606,001 - 17,616,170 (-)NCBI
Rnor_5.01417,523,451 - 17,533,559 (-)NCBI
RGSC_v3.41417,673,407 - 17,683,579 (-)RGD
Celera1415,495,699 - 15,505,866 (-)RGD
Sequence:
RefSeq Acc Id: XM_017599174   ⟹   XP_017454663
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81416,385,579 - 16,397,553 (-)NCBI
mRatBN7.21416,101,309 - 16,113,283 (-)NCBI
Rnor_6.01417,604,014 - 17,615,937 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001100679 (Get FASTA)   NCBI Sequence Viewer  
  XP_017454663 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL88595 (Get FASTA)   NCBI Sequence Viewer  
  EDL88596 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000071541
  ENSRNOP00000071541.1
Reference Protein Sequences
RefSeq Acc Id: NP_001100679   ⟸   NM_001107209
- UniProtKB: A0A0G2K0Q4 (UniProtKB/TrEMBL),   A6KKB4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017454663   ⟸   XM_017599174
- Peptide Label: isoform X1
- UniProtKB: A0A0G2K0Q4 (UniProtKB/TrEMBL),   A6KKB4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000071541   ⟸   ENSRNOT00000090938
Protein Domains
THAP-type

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-A0A0G2K0Q4-F1-model_v2 AlphaFold A0A0G2K0Q4 1-216 view protein structure

Transcriptome

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

Promoters
RGD ID:13699219
Promoter ID:EPDNEW_R9744
Type:initiation region
Name:Thap6_1
Description:THAP domain containing 6
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01417,616,153 - 17,616,213EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1310094 AgrOrtholog
BioCyc Gene G2FUF-16239 BioCyc
Ensembl Genes ENSRNOG00000058724 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000090938 ENTREZGENE
  ENSRNOT00000090938.2 UniProtKB/TrEMBL
Gene3D-CATH 6.20.210.20 UniProtKB/TrEMBL
InterPro THAP_Znf_sf UniProtKB/TrEMBL
  Znf_C2CH UniProtKB/TrEMBL
KEGG Report rno:305244 UniProtKB/TrEMBL
NCBI Gene 305244 ENTREZGENE
PANTHER THAP DOMAIN-CONTAINING PROTEIN 6 UniProtKB/TrEMBL
  THAP DOMAIN-CONTAINING PROTEIN 6 UniProtKB/TrEMBL
Pfam THAP UniProtKB/TrEMBL
PhenoGen Thap6 PhenoGen
PROSITE ZF_THAP UniProtKB/TrEMBL
RatGTEx ENSRNOG00000058724 RatGTEx
SMART DM3 UniProtKB/TrEMBL
  THAP UniProtKB/TrEMBL
Superfamily-SCOP Glucocorticoid receptor-like (DNA-binding domain) UniProtKB/TrEMBL
UniProt A0A0G2K0Q4 ENTREZGENE, UniProtKB/TrEMBL
  A6KKB4 ENTREZGENE, UniProtKB/TrEMBL
  A6KKB5_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-04-30 Thap6  THAP domain containing 6   Thap6_predicted  THAP domain containing 6 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Thap6_predicted  THAP domain containing 6 (predicted)      Symbol and Name status set to approved 70820 APPROVED