Thoc1 (THO complex subunit 1) - Rat Genome Database

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Gene: Thoc1 (THO complex subunit 1) Rattus norvegicus
Analyze
Symbol: Thoc1
Name: THO complex subunit 1
RGD ID: 1308657
Description: Predicted to be involved in mRNA export from nucleus. Predicted to be located in cytoplasm and nuclear speck. Predicted to be part of THO complex part of transcription export complex. Predicted to colocalize with chromosome, telomeric region. Human ortholog(s) of this gene implicated in autosomal dominant nonsyndromic deafness. Orthologous to human THOC1 (THO complex subunit 1); PARTICIPATES IN NXF1-NXT1 export pathway; RNA transport pathway; spliceosome pathway; INTERACTS WITH 1-naphthyl isothiocyanate; 2,4-dinitrotoluene; 2,6-dinitrotoluene.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC291797; LRRGT00070; THO complex 1
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
GRCr8181,253,041 - 1,291,956 (+)NCBIGRCr8
mRatBN7.218983,824 - 1,019,123 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl18983,824 - 1,019,114 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx181,210,687 - 1,246,930 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0181,998,516 - 2,034,760 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0181,212,584 - 1,248,828 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0181,142,540 - 1,177,084 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl181,142,782 - 1,176,974 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0181,185,400 - 1,220,171 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4181,256,731 - 1,290,988 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1181,256,490 - 1,292,340 (+)NCBI
Celera18877,009 - 911,268 (+)NCBICelera
Cytogenetic Map18p13NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. mRNA export and the TREX complex. Katahira J Biochim Biophys Acta. 2012 Jun;1819(6):507-13. doi: 10.1016/j.bbagrm.2011.12.001. Epub 2011 Dec 8.
2. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
3. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
4. GOA pipeline RGD automated data pipeline
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
6. Comprehensive gene review and curation RGD comprehensive gene curation
Additional References at PubMed
PMID:10512864   PMID:15358532   PMID:15833825   PMID:15870275   PMID:15998806   PMID:17190602   PMID:18974867   PMID:21873635   PMID:22144908   PMID:24270157  


Genomics

Comparative Map Data
Thoc1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8181,253,041 - 1,291,956 (+)NCBIGRCr8
mRatBN7.218983,824 - 1,019,123 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl18983,824 - 1,019,114 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx181,210,687 - 1,246,930 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0181,998,516 - 2,034,760 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0181,212,584 - 1,248,828 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0181,142,540 - 1,177,084 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl181,142,782 - 1,176,974 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0181,185,400 - 1,220,171 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4181,256,731 - 1,290,988 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1181,256,490 - 1,292,340 (+)NCBI
Celera18877,009 - 911,268 (+)NCBICelera
Cytogenetic Map18p13NCBI
THOC1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3818214,520 - 268,047 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl18214,520 - 268,050 (-)EnsemblGRCh38hg38GRCh38
GRCh3718214,520 - 268,047 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 3618204,520 - 258,059 (-)NCBINCBI36Build 36hg18NCBI36
Build 3418204,521 - 258,023NCBI
Celera1889,677 - 143,220 (-)NCBICelera
Cytogenetic Map18p11.32NCBI
HuRef18174,232 - 227,731 (-)NCBIHuRef
CHM1_118213,796 - 267,049 (-)NCBICHM1_1
T2T-CHM13v2.018368,271 - 422,046 (-)NCBIT2T-CHM13v2.0
Thoc1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39189,958,176 - 9,995,486 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl189,957,906 - 9,995,489 (+)EnsemblGRCm39 Ensembl
GRCm38189,958,180 - 9,995,484 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl189,957,906 - 9,995,489 (+)EnsemblGRCm38mm10GRCm38
MGSCv37189,958,178 - 9,995,482 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36189,958,178 - 9,995,482 (+)NCBIMGSCv36mm8
Celera189,987,590 - 10,024,843 (+)NCBICelera
Cytogenetic Map18A1NCBI
cM Map184.91NCBI
Thoc1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554029,675,204 - 9,708,045 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554029,675,211 - 9,708,045 (+)NCBIChiLan1.0ChiLan1.0
THOC1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21738,229,329 - 38,279,621 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11823,921,934 - 23,972,214 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01814,052,858 - 14,102,559 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11817,692,797 - 17,742,572 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1817,692,797 - 17,742,570 (+)Ensemblpanpan1.1panPan2
THOC1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1767,082,100 - 67,136,592 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl767,082,231 - 67,136,525 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha766,535,949 - 66,590,326 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0767,147,395 - 67,201,773 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl767,147,409 - 67,364,861 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1766,811,589 - 66,865,828 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0766,835,972 - 66,890,373 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0767,138,026 - 67,192,666 (-)NCBIUU_Cfam_GSD_1.0
Thoc1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494463,177,925 - 63,226,024 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936550590,058 - 641,390 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936550590,119 - 638,152 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
THOC1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl6106,040,042 - 106,088,021 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.16106,039,262 - 106,088,125 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
THOC1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11859,624,623 - 59,676,133 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1859,624,729 - 59,676,117 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605034,414,870 - 34,466,454 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Thoc1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462477010,771,785 - 10,811,287 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Thoc1
108 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:86
Count of miRNA genes:78
Interacting mature miRNAs:80
Transcripts:ENSRNOT00000046718
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
8552968Pigfal19Plasma insulin-like growth factor 1 level QTL 1911.4blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)18125758124Rat
9590248Scort10Serum corticosterone level QTL 1019.710.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)18125758124Rat
2312598Bp340Blood pressure QTL 3400.05arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)18130558703Rat
2300180Bmd67Bone mineral density QTL 674.80.0001femur mineral mass (VT:0010011)bone mineral density (CMO:0001226)18134291613Rat
2293661Bss50Bone structure and strength QTL 504.640.0003lumbar vertebra size trait (VT:0010518)lumbar vertebra trabecular cross-sectional area (CMO:0001692)18134291613Rat
61388Bp2Blood pressure QTL 23.23arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)18135374722Rat
9589153Insul31Insulin level QTL 317.150.05blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)18142547119Rat

Markers in Region
RH138285  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2181,003,756 - 1,003,904 (+)MAPPERmRatBN7.2
Rnor_6.0181,162,630 - 1,162,777NCBIRnor6.0
Rnor_5.0181,205,550 - 1,205,697UniSTSRnor5.0
RGSC_v3.4181,276,644 - 1,276,791UniSTSRGSC3.4
Celera18896,925 - 897,072UniSTS
RH 3.4 Map1830.0UniSTS
Cytogenetic Map18p13UniSTS
RH129530  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2181,018,213 - 1,018,397 (+)MAPPERmRatBN7.2
Rnor_6.0181,177,087 - 1,177,270NCBIRnor6.0
Rnor_5.0181,220,007 - 1,220,190UniSTSRnor5.0
RGSC_v3.4181,291,101 - 1,291,284UniSTSRGSC3.4
Celera18911,381 - 911,564UniSTS
RH 3.4 Map1831.0UniSTS
Cytogenetic Map18p13UniSTS
RH132156  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.218983,256 - 983,446 (+)MAPPERmRatBN7.2
Rnor_6.0181,142,198 - 1,142,387NCBIRnor6.0
Rnor_5.0181,185,051 - 1,185,240UniSTSRnor5.0
RGSC_v3.4181,256,147 - 1,256,336UniSTSRGSC3.4
Celera18876,425 - 876,614UniSTS
Cytogenetic Map18p13UniSTS


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 34 55 39 19 39 2 2 74 35 41 11 2
Low 9 2 2 2 6 9 6
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000046718   ⟹   ENSRNOP00000042658
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl18983,824 - 1,018,355 (+)Ensembl
Rnor_6.0 Ensembl181,142,782 - 1,176,974 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000113760   ⟹   ENSRNOP00000079602
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl18983,841 - 1,019,114 (+)Ensembl
RefSeq Acc Id: NM_001047850   ⟹   NP_001041315
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8181,256,660 - 1,291,956 (+)NCBI
mRatBN7.218983,824 - 1,019,123 (+)NCBI
Rnor_6.0181,142,782 - 1,176,974 (+)NCBI
Rnor_5.0181,185,400 - 1,220,171 (+)NCBI
RGSC_v3.4181,256,731 - 1,290,988 (+)RGD
Celera18877,009 - 911,268 (+)RGD
Sequence:
RefSeq Acc Id: NM_001398637   ⟹   NP_001385566
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8181,256,660 - 1,291,956 (+)NCBI
mRatBN7.218983,824 - 1,019,123 (+)NCBI
RefSeq Acc Id: XM_063277273   ⟹   XP_063133343
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8181,253,041 - 1,289,535 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001041315 (Get FASTA)   NCBI Sequence Viewer  
  NP_001385566 (Get FASTA)   NCBI Sequence Viewer  
  XP_063133343 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAQ91026 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000042658
  ENSRNOP00000042658.2
  ENSRNOP00000079602
  ENSRNOP00000079602.1
Reference Protein Sequences
RefSeq Acc Id: NP_001041315   ⟸   NM_001047850
- Peptide Label: isoform 2
- UniProtKB: Q6TUH4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000042658   ⟸   ENSRNOT00000046718
RefSeq Acc Id: ENSRNOP00000079602   ⟸   ENSRNOT00000113760
RefSeq Acc Id: NP_001385566   ⟸   NM_001398637
- Peptide Label: isoform 1
- UniProtKB: F7FH27 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063133343   ⟸   XM_063277273
- Peptide Label: isoform X1
Protein Domains
Death

Transcriptome

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

Promoters
RGD ID:13700627
Promoter ID:EPDNEW_R11151
Type:multiple initiation site
Name:Thoc1_1
Description:THO complex 1
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_6.0181,142,765 - 1,142,825EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1308657 AgrOrtholog
BioCyc Gene G2FUF-8423 BioCyc
Ensembl Genes ENSRNOG00000015332 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000046718 ENTREZGENE
  ENSRNOT00000046718.4 UniProtKB/TrEMBL
  ENSRNOT00000113760 ENTREZGENE
  ENSRNOT00000113760.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.533.10 UniProtKB/TrEMBL
InterPro DEATH-like_dom UniProtKB/TrEMBL
  Death_domain UniProtKB/TrEMBL
  THO_THOC1 UniProtKB/TrEMBL
KEGG Report rno:291797 UniProtKB/TrEMBL
NCBI Gene 291797 ENTREZGENE
PANTHER PTHR13265 UniProtKB/TrEMBL
  THO COMPLEX SUBUNIT 1 UniProtKB/TrEMBL
Pfam Death UniProtKB/TrEMBL
  efThoc1 UniProtKB/TrEMBL
PhenoGen Thoc1 PhenoGen
PROSITE DEATH_DOMAIN UniProtKB/TrEMBL
RatGTEx ENSRNOG00000015332 RatGTEx
SMART DEATH UniProtKB/TrEMBL
Superfamily-SCOP SSF47986 UniProtKB/TrEMBL
UniProt A6KND6_RAT UniProtKB/TrEMBL
  F7FH27 ENTREZGENE, UniProtKB/TrEMBL
  Q6TUH4 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2022-09-30 Thoc1  THO complex subunit 1  Thoc1  THO complex 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-12-06 Thoc1  THO complex 1  Thoc1_predicted  THO complex 1 (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-12 Thoc1_predicted  THO complex 1 (predicted)      Symbol and Name status set to approved 70820 APPROVED