Thap4 (THAP domain containing 4) - Rat Genome Database

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Gene: Thap4 (THAP domain containing 4) Rattus norvegicus
Analyze
Symbol: Thap4
Name: THAP domain containing 4
RGD ID: 1359473
Description: Predicted to enable several functions, including heme binding activity; nitric oxide binding activity; and peroxynitrite isomerase activity. Predicted to be involved in nitrate metabolic process and tyrosine metabolic process. Predicted to be located in cytosol and nucleoplasm. Orthologous to human THAP4 (THAP domain containing 4); INTERACTS WITH (+)-schisandrin B; bisphenol A; diuron.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: ferric nitrobindin; MGC93755; Nb(III); peroxynitrite isomerase THAP4; THAP domain-containing protein 4
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
GRCr89101,689,935 - 101,729,656 (-)NCBIGRCr8
mRatBN7.2994,242,581 - 94,282,312 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl994,242,581 - 94,282,306 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx9102,678,061 - 102,717,571 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.09107,813,709 - 107,853,217 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.09106,169,811 - 106,209,318 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.09100,848,597 - 100,888,107 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl9100,848,598 - 100,888,107 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.09100,501,661 - 100,541,256 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4992,989,072 - 93,031,408 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1993,193,841 - 93,236,177 (-)NCBI
Celera991,777,055 - 91,816,491 (-)NCBICelera
Cytogenetic Map9q36NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
cytosol  (IEA,ISO)
nucleoplasm  (IEA,ISO)

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. null JRS Domain-based curation
2. GOA pipeline RGD automated data pipeline
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
4. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
Additional References at PubMed
PMID:15489334   PMID:21387410   PMID:30524950  


Genomics

Comparative Map Data
Thap4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr89101,689,935 - 101,729,656 (-)NCBIGRCr8
mRatBN7.2994,242,581 - 94,282,312 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl994,242,581 - 94,282,306 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx9102,678,061 - 102,717,571 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.09107,813,709 - 107,853,217 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.09106,169,811 - 106,209,318 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.09100,848,597 - 100,888,107 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl9100,848,598 - 100,888,107 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.09100,501,661 - 100,541,256 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4992,989,072 - 93,031,408 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1993,193,841 - 93,236,177 (-)NCBI
Celera991,777,055 - 91,816,491 (-)NCBICelera
Cytogenetic Map9q36NCBI
THAP4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382241,584,405 - 241,637,576 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2241,584,405 - 241,637,158 (-)EnsemblGRCh38hg38GRCh38
GRCh372242,523,820 - 242,576,573 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362242,172,493 - 242,225,328 (-)NCBINCBI36Build 36hg18NCBI36
Celera2236,191,554 - 236,248,451 (-)NCBICelera
Cytogenetic Map2q37.3NCBI
HuRef2234,277,652 - 234,329,989 (-)NCBIHuRef
CHM1_12242,529,419 - 242,582,861 (-)NCBICHM1_1
T2T-CHM13v2.02242,084,274 - 242,140,900 (-)NCBIT2T-CHM13v2.0
Thap4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39193,633,113 - 93,682,560 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl193,629,657 - 93,682,586 (-)EnsemblGRCm39 Ensembl
GRCm38193,705,391 - 93,754,838 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl193,701,935 - 93,754,864 (-)EnsemblGRCm38mm10GRCm38
MGSCv37195,601,968 - 95,651,415 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36195,535,797 - 95,585,244 (-)NCBIMGSCv36mm8
MGSCv36194,158,268 - 94,207,849 (-)NCBIMGSCv36mm8
Celera196,650,530 - 96,699,008 (-)NCBICelera
Cytogenetic Map1DNCBI
cM Map147.29NCBI
Thap4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955542195,088 - 217,831 (+)EnsemblChiLan1.0
ChiLan1.0NW_004955542192,888 - 217,985 (+)NCBIChiLan1.0ChiLan1.0
THAP4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v213144,290,268 - 144,345,336 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12B144,305,143 - 144,360,216 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02B128,858,512 - 128,913,474 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12B247,650,249 - 247,684,576 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2B247,650,249 - 247,701,219 (-)Ensemblpanpan1.1panPan2
THAP4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12551,456,349 - 51,480,753 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2551,456,344 - 51,494,367 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2551,674,803 - 51,713,677 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02551,654,937 - 51,693,321 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2551,654,925 - 51,693,318 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12551,504,264 - 51,543,189 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02551,244,160 - 51,282,359 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02551,520,478 - 51,559,045 (-)NCBIUU_Cfam_GSD_1.0
Thap4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405303192,881,163 - 192,902,172 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936745316,748 - 338,142 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936745324,988 - 338,257 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
THAP4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl15140,185,682 - 140,223,477 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.115140,190,198 - 140,223,454 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.215154,825,625 - 154,838,103 (-)NCBISscrofa10.2Sscrofa10.2susScr3
THAP4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.110127,643,567 - 127,689,582 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl10127,643,102 - 127,689,377 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604071,633,005 - 71,678,844 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Thap4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248475,578,001 - 5,605,423 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248475,579,521 - 5,605,447 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Thap4
137 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:187
Count of miRNA genes:145
Interacting mature miRNAs:157
Transcripts:ENSRNOT00000024794
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
731164Uae25Urinary albumin excretion QTL 253.50.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)925661188100929786Rat
4889852Pur26Proteinuria QTL 26150.001urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)977813894101597663Rat
7794784Mcs31Mammary carcinoma susceptibility QTL 312.98mammary gland integrity trait (VT:0010552)mammary tumor incidence/prevalence measurement (CMO:0000946)977813894111552878Rat
1300134Bp185Blood pressure QTL 1853.73arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)961381434104821652Rat
1354626Bvd1Brain ventricular dilatation QTL 13.730.001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)975712843111552878Rat
1582203Gluco19Glucose level QTL 193.30.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)992491589100929786Rat
1581580Uae34Urinary albumin excretion QTL 34urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)96207227596470995Rat
1578757Pur6Proteinuria QTL 63.30.005urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)96207227596470995Rat
61385Edpm9Estrogen-dependent pituitary mass QTL 93.430.05pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)963869687108869687Rat
2290450Scl57Serum cholesterol level QTL 574.15blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)93696235995410867Rat
724515Uae16Urinary albumin excretion QTL 168urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)958163035100929646Rat
724544Uae9Urinary albumin excretion QTL 94.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)925268044114175309Rat
731171Glom6Glomerulus QTL 62.80.0003kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)964573531109573531Rat
1578760Cm53Cardiac mass QTL 533.30.0001heart mass (VT:0007028)heart wet weight (CMO:0000069)956771635101771635Rat
724547Cm21Cardiac mass QTL 212.7heart mass (VT:0007028)calculated heart weight (CMO:0000073)979271511102910209Rat

Markers in Region
AA924144  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2994,242,657 - 94,242,852 (+)MAPPERmRatBN7.2
Rnor_6.09100,848,674 - 100,848,868NCBIRnor6.0
Rnor_5.09100,501,738 - 100,501,932UniSTSRnor5.0
RGSC_v3.4992,989,149 - 92,989,343UniSTSRGSC3.4
Celera991,777,132 - 91,777,326UniSTS
RH 3.4 Map9806.7UniSTS
Cytogenetic Map9q36UniSTS


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 35 22 14 3 14 6 9 73 35 41 11 6
Low 8 35 27 16 27 2 2 1 2
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000024794   ⟹   ENSRNOP00000024794
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl994,242,581 - 94,282,125 (-)Ensembl
Rnor_6.0 Ensembl9100,848,598 - 100,888,107 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000096279   ⟹   ENSRNOP00000088157
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl994,242,605 - 94,282,111 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000100100   ⟹   ENSRNOP00000094711
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl994,242,581 - 94,282,306 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000103287   ⟹   ENSRNOP00000077619
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl994,242,581 - 94,265,301 (-)Ensembl
RefSeq Acc Id: NM_001005564   ⟹   NP_001005564
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr89101,689,935 - 101,729,441 (-)NCBI
mRatBN7.2994,242,581 - 94,282,090 (-)NCBI
Rnor_6.09100,848,597 - 100,888,107 (-)NCBI
Rnor_5.09100,501,661 - 100,541,256 (-)NCBI
RGSC_v3.4992,989,072 - 93,031,408 (-)RGD
Celera991,777,055 - 91,816,491 (-)RGD
Sequence:
RefSeq Acc Id: XM_008767380   ⟹   XP_008765602
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr89101,689,935 - 101,720,079 (-)NCBI
mRatBN7.2994,242,581 - 94,265,160 (-)NCBI
Rnor_6.09100,848,597 - 100,872,100 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039083932   ⟹   XP_038939860
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr89101,689,935 - 101,729,656 (-)NCBI
mRatBN7.2994,242,581 - 94,282,312 (-)NCBI
Reference Protein Sequences
RefSeq Acc Id: NP_001005564   ⟸   NM_001005564
- UniProtKB: Q642B6 (UniProtKB/Swiss-Prot),   A6JR27 (UniProtKB/TrEMBL),   A0A8I6ANL8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008765602   ⟸   XM_008767380
- Peptide Label: isoform X2
- UniProtKB: A0A8I5YBX9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000024794   ⟸   ENSRNOT00000024794
RefSeq Acc Id: XP_038939860   ⟸   XM_039083932
- Peptide Label: isoform X1
- UniProtKB: A0A8I6ANL8 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSRNOP00000094711   ⟸   ENSRNOT00000100100
RefSeq Acc Id: ENSRNOP00000077619   ⟸   ENSRNOT00000103287
RefSeq Acc Id: ENSRNOP00000088157   ⟸   ENSRNOT00000096279
Protein Domains
THAP-type   THAP4-like heme-binding beta-barrel

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q642B6-F1-model_v2 AlphaFold Q642B6 1-569 view protein structure

Transcriptome

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

Promoters
RGD ID:13696881
Promoter ID:EPDNEW_R7405
Type:initiation region
Name:Thap4_1
Description:THAP domain containing 4
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_6.09100,888,145 - 100,888,205EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1359473 AgrOrtholog
BioCyc Gene G2FUF-26632 BioCyc
Ensembl Genes ENSRNOG00000018351 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ENSRNOG00060009524 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000024794 ENTREZGENE
  ENSRNOT00000024794.5 UniProtKB/Swiss-Prot
  ENSRNOT00000096279.1 UniProtKB/TrEMBL
  ENSRNOT00000100100.1 UniProtKB/TrEMBL
  ENSRNOT00000103287.1 UniProtKB/TrEMBL
  ENSRNOT00060016111 UniProtKB/Swiss-Prot
Gene3D-CATH 2.40.128.20 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  6.20.210.20 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7108379 IMAGE-MGC_LOAD
InterPro Calycin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  DUF1794 UniProtKB/Swiss-Prot
  Nitrobindin UniProtKB/TrEMBL, UniProtKB/Swiss-Prot
  THAP4-like_heme-bd UniProtKB/TrEMBL
  THAP_Znf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  THAP_Znf_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:363291 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE MGC:93755 IMAGE-MGC_LOAD
NCBI Gene 363291 ENTREZGENE
PANTHER PEROXYNITRITE ISOMERASE THAP4 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR15854 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam DUF1794 UniProtKB/Swiss-Prot
  THAP UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  THAP4_heme-bd UniProtKB/TrEMBL
PhenoGen Thap4 PhenoGen
PROSITE ZF_THAP UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000018351 RatGTEx
  ENSRNOG00060009524 RatGTEx
SMART DM3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  THAP UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP Glucocorticoid receptor-like (DNA-binding domain) UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF50814 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A8I5YBX9 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6A5M2_RAT UniProtKB/TrEMBL
  A0A8I6ANL8 ENTREZGENE, UniProtKB/TrEMBL
  A6JR27 ENTREZGENE, UniProtKB/TrEMBL
  A6JR28_RAT UniProtKB/TrEMBL
  A6JR29_RAT UniProtKB/TrEMBL
  Q642B6 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2006-03-30 Thap4  THAP domain containing 4      Symbol and Name status set to approved 1299863 APPROVED
2005-07-29 Thap4  THAP domain containing 4      Symbol and Name status set to provisional 70820 PROVISIONAL