C9h6orf141 (similar to human chromosome 6 open reading frame 141) - Rat Genome Database

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Gene: C9h6orf141 (similar to human chromosome 6 open reading frame 141) Rattus norvegicus
Analyze
Symbol: C9h6orf141 (Ensembl: LOC688459)
Name: similar to human chromosome 6 open reading frame 141 (Ensembl:hypothetical protein LOC688459)
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
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2920,024,916 - 20,029,094 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl920,024,916 - 20,029,094 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx928,596,148 - 28,600,343 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0933,670,700 - 33,674,895 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0931,977,547 - 31,981,744 (+)NCBIRnor_WKY
Rnor_6.0923,420,654 - 23,424,832 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl923,420,654 - 23,424,832 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0922,278,199 - 22,282,377 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4915,897,052 - 15,901,249 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera917,702,520 - 17,706,698 (+)NCBICelera
Cytogenetic Map9q13NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


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
mRatBN7.2920,024,916 - 20,029,094 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl920,024,916 - 20,029,094 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx928,596,148 - 28,600,343 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0933,670,700 - 33,674,895 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0931,977,547 - 31,981,744 (+)NCBIRnor_WKY
Rnor_6.0923,420,654 - 23,424,832 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl923,420,654 - 23,424,832 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0922,278,199 - 22,282,377 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4915,897,052 - 15,901,249 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
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.p13 Ensembl649,550,666 - 49,561,907 (+)EnsemblGRCh38hg38GRCh38
GRCh37649,518,381 - 49,529,629 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36649,625,862 - 49,628,148 (+)NCBINCBI36Build 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 Ensembl
GRCm381740,875,482 - 40,880,558 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1740,875,482 - 40,880,559 (-)EnsemblGRCm38mm10GRCm38
MGSCv371741,012,431 - 41,017,507 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361740,338,966 - 40,344,036 (-)NCBIMGSCv36mm8
Celera1744,280,823 - 44,285,900 (-)NCBICelera
Cytogenetic Map17B2NCBI
CUNH6orf141
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_00495541033,414,621 - 33,420,002 (-)NCBIChiLan1.0ChiLan1.0
C6H6orf141
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1650,381,523 - 50,392,967 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl650,381,916 - 50,382,650 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0649,119,563 - 49,130,965 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
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 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1217,290,213 - 17,291,802 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01217,886,472 - 17,887,934 (+)NCBIROS_Cfam_1.0
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_1.0
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
SpeTri2.0NW_00493647611,151,455 - 11,155,130 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CUNH6orf141
(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 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604449,527,535 - 49,532,108 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0

Variants

.
Variants in C9h6orf141
87 total Variants
miRNA Target Status

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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
70226Eae4Experimental allergic encephalomyelitis QTL 4nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)9125661317Rat
9589055Scfw5Subcutaneous fat weight QTL 55.550.001subcutaneous adipose mass (VT:1000472)abdominal subcutaneous fat pad weight (CMO:0002069)9137999212Rat
7411592Foco8Food consumption QTL 87.40.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)9137999212Rat
9589158Gluco65Glucose level QTL 656.820.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)9137999212Rat
1300124Cm4Cardiac mass QTL 43.55heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)9140594091Rat
1298088Edpm11Estrogen-dependent pituitary mass QTL 112.5pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)9143718459Rat
1641911Alcrsp13Alcohol response QTL 13response to alcohol trait (VT:0010489)brain neurotensin receptor 1 density (CMO:0002068)9143718459Rat
10054125Srcrt7Stress Responsive Cort QTL 73.330.0011blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)9187073594Rat
1331757Cdexp1CD45RC expression in CD8 T cells QTL 14.3CD8-positive T cell quantity (VT:0008077)blood CD45RC(high) CD8 T cell count to CD45RC(low) CD8 T cell count ratio (CMO:0001990)9102453767509080Rat
1354650Despr5Despair related QTL 54.010.0017locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)9125408446254084Rat
2303559Gluco54Glucose level QTL 542blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)9125408446254084Rat
61425Cia15Collagen induced arthritis QTL 154.6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)9510982642921101Rat
631211Bw4Body weight QTL45.31retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)9510982650109826Rat
11353947Bp392Blood pressure QTL 392arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)9728325252283252Rat
61450Ciaa3CIA Autoantibody QTL 36.5blood autoantibody amount (VT:0003725)calculated serum anti-type 2 collagen antibody titer (CMO:0001279)9795472022071169Rat
9589133Insul26Insulin level QTL 2617.960.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)9895256053952560Rat
7411609Foco16Food consumption QTL 1625.60.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)9895256053952560Rat
1600365Mcs20Mammary carcinoma susceptibility QTL 203mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)91353377042791750Rat
724543Cm20Cardiac mass QTL 203.9heart mass (VT:0007028)calculated heart weight (CMO:0000073)91696139840594091Rat


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
Low 12 25 22 12 22 47 20 35 2
Below cutoff 25 15 3 6 3 2 2 27 11 4 8 2

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000073595   ⟹   ENSRNOP00000066781
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
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
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  
Reference Sequences
RefSeq Acc Id: NP_001102972   ⟸   NM_001109502
- UniProtKB: B2RZ52 (UniProtKB/TrEMBL)
- Sequence:
RefSeq 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 Protein ENSRNOP00000066781 ENTREZGENE
  ENSRNOP00000066781.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000073595 ENTREZGENE
  ENSRNOT00000073595.3 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 PTHR36880 UniProtKB/TrEMBL
PhenoGen C9h6orf141 PhenoGen
UniProt B2RZ52 ENTREZGENE, 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 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