C9h6orf141 (similar to human chromosome 6 open reading frame 141) - 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 Behavioral & Substance Use Disorder 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 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
Advanced Search (OLGA)
Gene: C9h6orf141 (similar to human chromosome 6 open reading frame 141) Rattus norvegicus
Analyze
Symbol: C9h6orf141
Name: similar to human chromosome 6 open reading frame 141
RGD ID: 1588829
Description: Predicted to act upstream of or within blastocyst hatching. Orthologous to human C6orf141 (chromosome 6 open reading frame 141); INTERACTS WITH bisphenol A; 17beta-estradiol (ortholog); 5-aza-2'-deoxycytidine (ortholog).
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: hypothetical protein LOC688459; hypothetical protein LOC688548; LOC688459; LOC688548; uncharacterized protein C6orf141 homolog; uncharacterized protein LOC688459
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8927,521,466 - 27,525,644 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl927,521,466 - 27,525,644 (+)EnsemblGRCr8
mRatBN7.2920,024,916 - 20,029,094 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl920,024,916 - 20,029,094 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx928,596,148 - 28,600,343 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0933,670,700 - 33,674,895 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0931,977,547 - 31,981,744 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0923,420,654 - 23,424,832 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl923,420,654 - 23,424,832 (+)Ensemblrn6Rnor6.0
Rnor_5.0922,278,199 - 22,282,377 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4915,897,052 - 15,901,249 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera917,702,520 - 17,706,698 (+)NCBICelera
Cytogenetic Map9q13NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

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. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:12477932   PMID:15632090   PMID:27869233  


Genomics

Comparative Map Data
C9h6orf141
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8927,521,466 - 27,525,644 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl927,521,466 - 27,525,644 (+)EnsemblGRCr8
mRatBN7.2920,024,916 - 20,029,094 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl920,024,916 - 20,029,094 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx928,596,148 - 28,600,343 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0933,670,700 - 33,674,895 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0931,977,547 - 31,981,744 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0923,420,654 - 23,424,832 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl923,420,654 - 23,424,832 (+)Ensemblrn6Rnor6.0
Rnor_5.0922,278,199 - 22,282,377 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4915,897,052 - 15,901,249 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera917,702,520 - 17,706,698 (+)NCBICelera
Cytogenetic Map9q13NCBI
C6orf141
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38649,550,668 - 49,561,916 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl649,550,666 - 49,561,907 (+)Ensemblhg38GRCh38
GRCh37649,518,381 - 49,529,629 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36649,625,862 - 49,628,148 (+)NCBIBuild 36Build 36hg18NCBI36
Build 34649,626,346 - 49,637,584NCBI
Celera651,074,268 - 51,075,963 (+)NCBICelera
Cytogenetic Map6p12.3NCBI
HuRef649,247,442 - 49,249,137 (+)NCBIHuRef
CHM1_1649,521,060 - 49,522,755 (+)NCBICHM1_1
T2T-CHM13v2.0649,392,796 - 49,404,015 (+)NCBIT2T-CHM13v2.0
9130008F23Rik
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391741,186,373 - 41,191,449 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1741,186,373 - 41,191,450 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm381740,875,482 - 40,880,558 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1740,875,482 - 40,880,559 (-)Ensemblmm10GRCm38
MGSCv371741,012,431 - 41,017,507 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361740,338,966 - 40,344,036 (-)NCBIMGSCv36mm8
Celera1744,280,823 - 44,285,900 (-)NCBICelera
Cytogenetic Map17B2NCBI
cM Map1719.54NCBI
CUNH6orf141
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_00495541033,414,621 - 33,420,002 (-)NCBIChiLan1.0ChiLan1.0
C5H6orf141
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2564,033,728 - 64,045,165 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1659,898,459 - 59,909,900 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0649,119,563 - 49,130,965 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1650,381,523 - 50,392,967 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl650,381,916 - 50,382,650 (+)EnsemblpanPan2panpan1.1
C12H6orf141
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11217,390,391 - 17,392,003 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1217,390,411 - 17,391,314 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha1217,290,213 - 17,291,802 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.01217,886,472 - 17,887,934 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1217,886,325 - 17,886,876 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11217,406,421 - 17,408,008 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01217,511,863 - 17,513,325 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01217,641,101 - 17,642,561 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
CUNH6orf141
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494652,805,097 - 52,806,456 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647611,154,252 - 11,154,872 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_00493647611,151,455 - 11,155,130 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
C17H6orf141
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11722,843,622 - 22,849,550 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1722,848,429 - 22,849,166 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366604449,527,535 - 49,532,108 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
C4H6orf141
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v1495,004,028 - 95,004,881 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in C9h6orf141
48 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:109
Count of miRNA genes:78
Interacting mature miRNAs:94
Transcripts:ENSRNOT00000073595
Prediction methods: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
2303170Bp332Blood pressure QTL 3323.730.027arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)9671488884474983Rat
631211Bw4Body weight QTL45.31retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)9534647950346479Rat
2303559Gluco54Glucose level QTL 542blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)9875049253750492Rat
7207814Bmd91Bone mineral density QTL 913.5femur size trait (VT:1000369)femoral neck cross-sectional area (CMO:0001697)9131250552Rat
9589055Scfw5Subcutaneous fat weight QTL 55.550.001subcutaneous adipose mass (VT:1000472)abdominal subcutaneous fat pad weight (CMO:0002069)949664545496645Rat
1641911Alcrsp13Alcohol response QTL 13response to alcohol trait (VT:0010489)brain neurotensin receptor 1 density (CMO:0002068)9621499551214995Rat
1354650Despr5Despair related QTL 54.010.0017locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)9875049253750492Rat
1300124Cm4Cardiac mass QTL 43.55heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)9141763315Rat
61425Cia15Collagen induced arthritis QTL 154.6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)9534647950416711Rat
631643Bp120Blood pressure QTL 12030.004arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)9671488829567695Rat
9589158Gluco65Glucose level QTL 656.820.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)949664545496645Rat
1600365Mcs20Mammary carcinoma susceptibility QTL 203mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)92103143049025574Rat
7411592Foco8Food consumption QTL 87.40.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)949664545496645Rat
1298088Edpm11Estrogen-dependent pituitary mass QTL 112.5pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)9621499551214995Rat


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 3 57 131 70 69 39 30 39 6 230 116 11 111 57 88 30 8 8

Sequence


Ensembl Acc Id: ENSRNOT00000073595   ⟹   ENSRNOP00000066781
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl927,521,466 - 27,525,644 (+)Ensembl
mRatBN7.2 Ensembl920,024,916 - 20,029,094 (+)Ensembl
Rnor_6.0 Ensembl923,420,654 - 23,424,832 (+)Ensembl
RefSeq Acc Id: NM_001109502   ⟹   NP_001102972
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8927,521,466 - 27,525,644 (+)NCBI
mRatBN7.2920,024,916 - 20,029,094 (+)NCBI
Rnor_6.0923,420,654 - 23,424,832 (+)NCBI
Rnor_5.0922,278,199 - 22,282,377 (+)NCBI
RGSC_v3.4915,897,052 - 15,901,249 (+)RGD
Celera917,702,520 - 17,706,698 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001102972 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAI67028 (Get FASTA)   NCBI Sequence Viewer  
  EDM18673 (Get FASTA)   NCBI Sequence Viewer  
  EDM18674 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000066781
  ENSRNOP00000066781.1
RefSeq Acc Id: NP_001102972   ⟸   NM_001109502
- UniProtKB: B2RZ52 (UniProtKB/TrEMBL),   A6JJ59 (UniProtKB/TrEMBL),   A6JJ58 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000066781   ⟸   ENSRNOT00000073595

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-B2RZ52-F1-model_v2 AlphaFold B2RZ52 1-179 view protein structure

Transcriptome

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

Promoters
RGD ID:13696567
Promoter ID:EPDNEW_R7090
Type:multiple initiation site
Name:LOC688459_1
Description:hypothetical protein LOC688459
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_6.0923,420,655 - 23,420,715EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1588829 AgrOrtholog
BioCyc Gene G2FUF-28083 BioCyc
Ensembl Genes ENSRNOG00000048967 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000073595 ENTREZGENE
  ENSRNOT00000073595.4 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:9091474 IMAGE-MGC_LOAD
InterPro C6orf141 UniProtKB/TrEMBL
KEGG Report rno:688459 UniProtKB/TrEMBL
MGC_CLONE MGC:189262 IMAGE-MGC_LOAD
NCBI Gene 688459 ENTREZGENE
PANTHER 9130008F23RIK PROTEIN UniProtKB/TrEMBL
  PTHR36880 UniProtKB/TrEMBL
PhenoGen C9h6orf141 PhenoGen
RatGTEx ENSRNOG00000048967 RatGTEx
UniProt A6JJ58 ENTREZGENE, UniProtKB/TrEMBL
  A6JJ59 ENTREZGENE, UniProtKB/TrEMBL
  B2RZ52 ENTREZGENE
UniProt Secondary B2RZ52 UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2022-07-13 C9h6orf141  similar to human chromosome 6 open reading frame 141  LOC688459  hypothetical protein LOC688459  Name and Symbol changed 629549 APPROVED
2015-07-29 LOC688459  hypothetical protein LOC688459  LOC688548  hypothetical protein LOC688548  Data merged from RGD:1587631 737654 PROVISIONAL
2006-11-19 LOC688459  hypothetical protein LOC688459      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-11-19 LOC688548  hypothetical protein LOC688548      Symbol and Name status set to provisional 70820 PROVISIONAL