R3hcc1 (R3H domain and coiled-coil containing 1) - Rat Genome Database

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Gene: R3hcc1 (R3H domain and coiled-coil containing 1) Rattus norvegicus
Analyze
Symbol: R3hcc1
Name: R3H domain and coiled-coil containing 1
RGD ID: 1311790
Description: Predicted to enable nucleic acid binding activity. Orthologous to human R3HCC1 (R3H domain and coiled-coil containing 1); INTERACTS WITH 2,4-dinitrotoluene; 2,6-dinitrotoluene; bisphenol A.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC361064; R3H and coiled-coil domain-containing protein 1; RGD1311790; similar to DNA segment, Chr 19, ERATO Doi 386, expressed
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81551,184,328 - 51,191,640 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1551,184,328 - 51,201,576 (-)EnsemblGRCr8
mRatBN7.21544,774,552 - 44,781,864 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1544,774,554 - 44,791,800 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1548,892,434 - 48,899,746 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01550,003,927 - 50,011,239 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01546,863,260 - 46,870,572 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01551,368,940 - 51,384,831 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1551,369,106 - 51,386,190 (-)Ensemblrn6Rnor6.0
Rnor_5.01555,096,682 - 55,112,566 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41550,072,604 - 50,088,460 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1544,456,889 - 44,472,780 (-)NCBICelera
RGSC_v3.11550,088,549 - 50,095,686 (-)NCBI
Cytogenetic Map15p11NCBI
JBrowse:




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

Molecular Function

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. GOA pipeline RGD automated data pipeline
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions

Genomics

Comparative Map Data
R3hcc1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81551,184,328 - 51,191,640 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1551,184,328 - 51,201,576 (-)EnsemblGRCr8
mRatBN7.21544,774,552 - 44,781,864 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1544,774,554 - 44,791,800 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1548,892,434 - 48,899,746 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01550,003,927 - 50,011,239 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01546,863,260 - 46,870,572 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01551,368,940 - 51,384,831 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1551,369,106 - 51,386,190 (-)Ensemblrn6Rnor6.0
Rnor_5.01555,096,682 - 55,112,566 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41550,072,604 - 50,088,460 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1544,456,889 - 44,472,780 (-)NCBICelera
RGSC_v3.11550,088,549 - 50,095,686 (-)NCBI
Cytogenetic Map15p11NCBI
R3HCC1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38823,288,092 - 23,296,279 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl823,270,120 - 23,296,279 (+)Ensemblhg38GRCh38
GRCh37823,145,605 - 23,153,792 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36823,201,387 - 23,209,737 (+)NCBIBuild 36Build 36hg18NCBI36
Celera822,108,180 - 22,116,360 (+)NCBICelera
Cytogenetic Map8p21.3NCBI
HuRef821,691,575 - 21,699,755 (+)NCBIHuRef
CHM1_1823,347,743 - 23,355,923 (+)NCBICHM1_1
T2T-CHM13v2.0823,562,965 - 23,571,152 (+)NCBIT2T-CHM13v2.0
R3hcc1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391469,934,753 - 69,952,258 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1469,934,756 - 69,945,033 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm381469,697,304 - 69,714,809 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1469,697,307 - 69,707,584 (-)Ensemblmm10GRCm38
MGSCv371470,097,111 - 70,107,387 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361470,097,111 - 70,117,552 (-)NCBIMGSCv36mm8
Celera1467,232,927 - 67,243,203 (-)NCBICelera
Cytogenetic Map14D2NCBI
cM Map1436.08NCBI
R3hcc1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540346,491,031 - 46,502,049 (+)Ensembl
ChiLan1.0NW_00495540346,482,255 - 46,502,194 (+)NCBIChiLan1.0ChiLan1.0
R3HCC1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2741,779,244 - 41,801,606 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1817,506,420 - 17,528,809 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0822,538,046 - 22,546,405 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1819,474,080 - 19,482,437 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl819,474,061 - 19,482,437 (+)EnsemblpanPan2panpan1.1
R3HCC1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12534,187,691 - 34,206,970 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2534,160,856 - 34,206,970 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha2534,776,090 - 34,795,369 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.02534,395,301 - 34,414,602 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2534,368,393 - 34,444,050 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12534,342,189 - 34,361,497 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02534,196,648 - 34,216,188 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02534,352,183 - 34,371,478 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
R3hcc1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494311,790,903 - 11,797,449 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365556,773,045 - 6,782,983 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049365556,773,104 - 6,779,608 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
R3HCC1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl147,405,792 - 7,434,935 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1147,419,558 - 7,434,938 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
R3HCC1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1821,407,791 - 21,415,927 (+)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366605220,806,627 - 20,814,763 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
R3hcc1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462475818,545,859 - 18,566,179 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462475818,559,670 - 18,566,342 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
R3hcc1
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11254,625,259 - 54,632,797 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in R3hcc1
98 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:101
Count of miRNA genes:89
Interacting mature miRNAs:95
Transcripts:ENSRNOT00000022706
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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1300144Rf23Renal function QTL 233.61renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)1544806773104695021Rat
738017Hcas7Hepatocarcinoma susceptibility QTL 72.91liver integrity trait (VT:0010547)liver nonremodeling tumorous lesion volume to total liver volume ratio (CMO:0001464)15231575953331089Rat
152025253Hrtrt24Heart rate QTL 243.82heart pumping trait (VT:2000009)153185580392671517Rat
10054130Srcrt8Stress Responsive Cort QTL 82.180.0085blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)152852773273527732Rat
1582227Gluco30Glucose level QTL 303.60.0003blood glucose amount (VT:0000188)absolute change in blood glucose level area under curve (CMO:0002034)154367724488677244Rat
1582228Epfw3Epididymal fat weight QTL 34.10.0002epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)154367724488677244Rat
1578646Bmd18Bone mineral density QTL 185.2femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)1525285835104695021Rat
2324620Coatc3Coat color QTL 3coat/hair pigmentation trait (VT:0010463)pigmented coat/hair area to total coat/hair area ratio (CMO:0001810)152233635152597086Rat
1578647Bmd17Bone mineral density QTL 174femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)1525285835104695021Rat
61424Scl1Serum cholesterol level QTL 17.70.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)151915576287086765Rat
1598828Glom14Glomerulus QTL 142.5kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)154046315285463152Rat
2317750Glom26Glomerulus QTL 264.3urine protein amount (VT:0005160)urine protein level (CMO:0000591)151492659471614418Rat
631550Bw7Body weight QTL 73.6body mass (VT:0001259)body weight (CMO:0000012)152233635167336351Rat
1582242Gluco28Glucose level QTL 283.30.0008blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)154367724488677244Rat
2306968Anxrr23Anxiety related response QTL 234.83reflex trait (VT:0001961)amplitude of the acoustic startle response (CMO:0001520)154480677352597086Rat
1578660Bss19Bone structure and strength QTL 194.3femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)1525285835104695021Rat
1582244Bw79Body weight QTL 7940.0002epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)154367724488677244Rat
7411725Strs7Sensitivity to stroke QTL 73.8cerebrum integrity trait (VT:0010549)percentage of study population developing cerebrovascular lesions during a period of time (CMO:0000932)154446544756583797Rat
1582214Stl21Serum triglyceride level QTL 213.10.022blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)154367724488677244Rat

Markers in Region
RH129569  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21544,774,646 - 44,774,821 (+)MAPPERmRatBN7.2
Rnor_6.01551,369,037 - 51,369,211NCBIRnor6.0
Rnor_5.01555,096,779 - 55,096,953UniSTSRnor5.0
RGSC_v3.41550,072,701 - 50,072,875UniSTSRGSC3.4
Celera1544,456,986 - 44,457,160UniSTS
Cytogenetic Map15p11UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 12 67 164 91 90 59 92 59 6 356 192 11 143 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000022706   ⟹   ENSRNOP00000022706
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1551,184,328 - 51,201,576 (-)Ensembl
mRatBN7.2 Ensembl1544,774,554 - 44,791,800 (-)Ensembl
Rnor_6.0 Ensembl1551,369,106 - 51,386,190 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000101142   ⟹   ENSRNOP00000088836
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1551,184,328 - 51,191,640 (-)Ensembl
mRatBN7.2 Ensembl1544,774,554 - 44,781,864 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000128318   ⟹   ENSRNOP00000105906
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1551,184,328 - 51,200,141 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000152037   ⟹   ENSRNOP00000101614
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1551,184,328 - 51,200,439 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000166931   ⟹   ENSRNOP00000110359
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1551,184,328 - 51,200,021 (-)Ensembl
RefSeq Acc Id: NM_001399508   ⟹   NP_001386437
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81551,184,328 - 51,191,640 (-)NCBI
mRatBN7.21544,774,552 - 44,781,864 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001386437 (Get FASTA)   NCBI Sequence Viewer  
  NP_001422663 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDM02190 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000022706.7
  ENSRNOP00000088836
  ENSRNOP00000088836.1
  ENSRNOP00000101614.1
  ENSRNOP00000105906.1
  ENSRNOP00000110359.1
Ensembl Acc Id: ENSRNOP00000022706   ⟸   ENSRNOT00000022706
Ensembl Acc Id: ENSRNOP00000088836   ⟸   ENSRNOT00000101142
RefSeq Acc Id: NP_001386437   ⟸   NM_001399508
- UniProtKB: A0A8I6ABI5 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSRNOP00000105906   ⟸   ENSRNOT00000128318
Ensembl Acc Id: ENSRNOP00000110359   ⟸   ENSRNOT00000166931
Ensembl Acc Id: ENSRNOP00000101614   ⟸   ENSRNOT00000152037
Protein Domains
R3H

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-F1LZB0-F1-model_v2 AlphaFold F1LZB0 1-593 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:1311790 AgrOrtholog
BioCyc Gene G2FUF-13254 BioCyc
Ensembl Genes ENSRNOG00000016777 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000022706.9 UniProtKB/TrEMBL
  ENSRNOT00000101142 ENTREZGENE
  ENSRNOT00000101142.2 UniProtKB/TrEMBL
  ENSRNOT00000128318.1 UniProtKB/TrEMBL
  ENSRNOT00000152037.1 UniProtKB/TrEMBL
  ENSRNOT00000166931.1 UniProtKB/TrEMBL
Gene3D-CATH 3.30.1370.50 UniProtKB/TrEMBL
  3.30.70.330 UniProtKB/TrEMBL
InterPro Nucleotide-bd_a/b_plait_sf UniProtKB/TrEMBL
  R3H_dom UniProtKB/TrEMBL
  R3H_dom_sf UniProtKB/TrEMBL
  R3HC1/R3HCL UniProtKB/TrEMBL
NCBI Gene 361064 ENTREZGENE
PANTHER PTHR21678 UniProtKB/TrEMBL
  R3H AND COILED-COIL DOMAIN-CONTAINING PROTEIN 1 UniProtKB/TrEMBL
Pfam R3H UniProtKB/TrEMBL
PhenoGen R3hcc1 PhenoGen
PROSITE R3H UniProtKB/TrEMBL
RatGTEx ENSRNOG00000016777 RatGTEx
SMART R3H UniProtKB/TrEMBL
Superfamily-SCOP SSF82708 UniProtKB/TrEMBL
UniProt A0A8I6ABI5 ENTREZGENE, UniProtKB/TrEMBL
  A0ABK0L0M0_RAT UniProtKB/TrEMBL
  A0ABK0LW32_RAT UniProtKB/TrEMBL
  A0ABK0M075_RAT UniProtKB/TrEMBL
  F1LZB0_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-04-30 R3hcc1  R3H domain and coiled-coil containing 1   R3hcc1_predicted  R3H domain and coiled-coil containing 1 (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-30 R3hcc1_predicted  R3H domain and coiled-coil containing 1 (predicted)  RGD1311790_predicted  similar to DNA segment, Chr 19, ERATO Doi 386, expressed (predicted)  Symbol and Name updated 1299863 APPROVED
2005-01-20 RGD1311790_predicted  similar to DNA segment, Chr 19, ERATO Doi 386, expressed (predicted)  LOC361064_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC361064_predicted  similar to DNA segment, Chr 19, ERATO Doi 386, expressed (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL