C22orf46P (chromosome 22 open reading frame 46, pseudogene) - 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 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: C22orf46P (chromosome 22 open reading frame 46, pseudogene) Homo sapiens
Analyze
Symbol: C22orf46P
Name: chromosome 22 open reading frame 46, pseudogene
RGD ID: 1606236
HGNC Page HGNC:26294
Description: INTERACTS WITH aristolochic acid A; benzo[a]pyrene; CGP 52608
Type: pseudo (Ensembl: transcribed_unitary_pseudogene)
RefSeq Status: VALIDATED
Previously known as: C22orf46; chromosome 22 open reading frame 46; chromosome 22 putative open reading frame 46; chromosome 22 putative open reading frame 46, pseudogene; CTA-216E10.6; FLJ23584; putative uncharacterized protein C22orf46; uncharacterized protein C22orf46
RGD Orthologs
Mouse
Rat
Chinchilla
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Allele / Splice: See ClinVar data
Latest Assembly: GRCh38 - Human Genome Assembly GRCh38
Position:
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382241,688,937 - 41,698,136 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2241,688,877 - 41,698,136 (+)EnsemblGRCh38hg38GRCh38
GRCh38.p14 Ensembl2241,690,628 - 41,698,136 (+)EnsemblGRCh38hg38GRCh38
GRCh372242,084,941 - 42,094,140 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362240,416,497 - 40,424,086 (+)NCBINCBI36Build 36hg18NCBI36
Celera2225,892,983 - 25,900,572 (+)NCBICelera
Cytogenetic Map22q13.2NCBI
HuRef2225,051,954 - 25,059,543 (+)NCBIHuRef
CHM1_12242,046,559 - 42,054,152 (+)NCBICHM1_1
T2T-CHM13v2.02242,167,914 - 42,177,110 (+)NCBIT2T-CHM13v2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


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

References - curated
# Reference Title Reference Citation
1. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:12477932   PMID:14702039   PMID:15231748   PMID:21832049   PMID:25416956   PMID:33195693   PMID:34048709   PMID:38228372  


Genomics

Comparative Map Data
C22orf46P
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382241,688,937 - 41,698,136 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2241,688,877 - 41,698,136 (+)EnsemblGRCh38hg38GRCh38
GRCh38.p14 Ensembl2241,690,628 - 41,698,136 (+)EnsemblGRCh38hg38GRCh38
GRCh372242,084,941 - 42,094,140 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362240,416,497 - 40,424,086 (+)NCBINCBI36Build 36hg18NCBI36
Celera2225,892,983 - 25,900,572 (+)NCBICelera
Cytogenetic Map22q13.2NCBI
HuRef2225,051,954 - 25,059,543 (+)NCBIHuRef
CHM1_12242,046,559 - 42,054,152 (+)NCBICHM1_1
T2T-CHM13v2.02242,167,914 - 42,177,110 (+)NCBIT2T-CHM13v2.0
4930407I10Rik
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391581,943,352 - 81,950,739 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1581,943,352 - 81,950,741 (+)EnsemblGRCm39 Ensembl
GRCm381582,059,151 - 82,066,538 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1582,059,151 - 82,066,540 (+)EnsemblGRCm38mm10GRCm38
MGSCv371581,889,581 - 81,896,968 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361581,886,406 - 81,893,793 (+)NCBIMGSCv36mm8
Celera1584,180,805 - 84,188,185 (+)NCBICelera
Cytogenetic Map15E1NCBI
cM Map1538.4NCBI
LOC100362109
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr87115,458,986 - 115,466,378 (+)NCBIGRCr8
mRatBN7.27113,578,871 - 113,586,264 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl7113,578,739 - 113,586,266 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.07123,295,519 - 123,304,163 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl7123,296,183 - 123,304,066 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.07123,280,330 - 123,287,609 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.47120,438,220 - 120,445,536 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera7109,893,861 - 109,901,652 (+)NCBICelera
Cytogenetic Map7q34NCBI
CUNH22orf46
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_00495541327,176,899 - 27,184,107 (+)NCBIChiLan1.0ChiLan1.0
C10H22orf46
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11023,611,419 - 23,618,178 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1023,544,538 - 23,551,727 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01024,356,416 - 24,363,171 (-)NCBIROS_Cfam_1.0
UMICH_Zoey_3.11024,073,335 - 24,080,089 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01024,392,995 - 24,401,019 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01024,568,602 - 24,575,357 (-)NCBIUU_Cfam_GSD_1.0
LOC101961701
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244049457,268,213 - 7,274,708 (-)NCBIHiC_Itri_2
SpeTri2.0NW_004936492278,730 - 284,983 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
C5H22orf46
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.156,878,161 - 6,884,879 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.254,248,428 - 4,255,702 (-)NCBISscrofa10.2Sscrofa10.2susScr3
LOC103223392
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11924,224,174 - 24,232,019 (+)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_023666045101,181,078 - 101,185,622 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
CUNH22orf46
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247526,965,984 - 6,972,463 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in C22orf46P
1 total Variants

Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
NM_001142964.1(C22orf46):c.464C>T (p.Ser155Phe) single nucleotide variant Malignant melanoma [RCV000072982] Chr22:41693710 [GRCh38]
Chr22:42089714 [GRCh37]
Chr22:40419660 [NCBI36]
Chr22:22q13.2		 not provided
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:2341
Count of miRNA genes:954
Interacting mature miRNAs:1152
Transcripts:ENST00000402966, ENST00000472110
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 (GRCh38)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
406942738GWAS591714_Hprotein measurement QTL GWAS591714 (human)2e-12protein measurement224169502341695024Human
407241052GWAS890028_Hbody fat percentage QTL GWAS890028 (human)2e-08body fat percentagebody fat percentage (CMO:0000302)224169208941692090Human

Markers in Region
RH74961  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh372242,093,918 - 42,094,138UniSTSGRCh37
Build 362240,423,864 - 40,424,084RGDNCBI36
Celera2225,900,350 - 25,900,570RGD
Cytogenetic Map22q13.2UniSTS
HuRef2225,059,321 - 25,059,541UniSTS


Expression

RNA-SEQ Expression

adipose tissue
alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
entire extraembryonic component
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
pharyngeal arch
renal system
reproductive system
respiratory system
sensory system
visual system
1204 2439 2788 2253 4973 1726 2351 6 624 1949 465 2269 7304 6470 53 3734 1 852 1744 1617 174 1

Sequence


Ensembl Acc Id: ENST00000472110
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl2241,688,937 - 41,697,886 (+)Ensembl
Ensembl Acc Id: ENST00000654032
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl2241,690,628 - 41,698,136 (+)Ensembl
Ensembl Acc Id: ENST00000656592
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl2241,688,939 - 41,698,136 (+)Ensembl
Ensembl Acc Id: ENST00000660688
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl2241,688,984 - 41,698,127 (+)Ensembl
Ensembl Acc Id: ENST00000664954
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl2241,688,877 - 41,697,774 (+)Ensembl
Ensembl Acc Id: ENST00000668666
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl2241,690,543 - 41,698,136 (+)Ensembl
Ensembl Acc Id: ENST00000790493
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl2241,688,971 - 41,689,692 (+)Ensembl
RefSeq Acc Id: NR_160905
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh382241,688,937 - 41,698,136 (+)NCBI
T2T-CHM13v2.02242,167,914 - 42,177,110 (+)NCBI
Sequence:
Protein Sequences
GenBank Protein AAH07210 (Get FASTA)   NCBI Sequence Viewer  
  BAB15702 (Get FASTA)   NCBI Sequence Viewer  
  BAD18602 (Get FASTA)   NCBI Sequence Viewer  
  EAW60455 (Get FASTA)   NCBI Sequence Viewer  
  EAW60457 (Get FASTA)   NCBI Sequence Viewer  

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-C9J442-F1-model_v2 AlphaFold C9J442 1-243 view protein structure

Promoters
RGD ID:6799731
Promoter ID:HG_KWN:43006
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:Lymphoblastoid
Transcripts:ENST00000356843,   ENST00000402458,   NM_001142964
Position:
Human AssemblyChrPosition (strand)Source
Build 362240,416,016 - 40,416,516 (+)MPROMDB
RGD ID:6814443
Promoter ID:HG_MGC:469
Type:Non-CpG
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:K562
Transcripts:BC007210
Position:
Human AssemblyChrPosition (strand)Source
Build 362240,422,686 - 40,423,186 (+)MPROMDB
RGD ID:13604278
Promoter ID:EPDNEW_H28322
Type:initiation region
Name:C22orf46_2
Description:chromosome 22 open reading frame 46
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_H28324  
Experiment Methods:Single-end sequencing.; Paired-end sequencing.
Position:
Human AssemblyChrPosition (strand)Source
GRCh382241,682,581 - 41,682,641EPDNEW
RGD ID:13604280
Promoter ID:EPDNEW_H28324
Type:initiation region
Name:C22orf46_1
Description:chromosome 22 open reading frame 46
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_H28322  
Experiment Methods:Single-end sequencing.; Paired-end sequencing.
Position:
Human AssemblyChrPosition (strand)Source
GRCh382241,688,963 - 41,689,023EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene HGNC:26294 AgrOrtholog
COSMIC C22orf46P COSMIC
Ensembl Genes ENSG00000184208 Ensembl
  ENSG00000293428 Ensembl, ENTREZGENE
Ensembl Transcript ENST00000656592 ENTREZGENE
GTEx ENSG00000184208 GTEx
  ENSG00000293428 GTEx
HGNC ID HGNC:26294 ENTREZGENE
Human Proteome Map C22orf46P Human Proteome Map
NCBI Gene 79640 ENTREZGENE
PharmGKB PA165378333 PharmGKB


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2023-01-09 C22orf46P  chromosome 22 open reading frame 46, pseudogene  C22orf46P  chromosome 22 putative open reading frame 46, pseudogene  Symbol and/or name change 19259463 PROVISIONAL
2022-09-19 C22orf46P  chromosome 22 putative open reading frame 46, pseudogene  C22orf46  chromosome 22 putative open reading frame 46  Symbol and/or name change 19259463 PROVISIONAL
2020-08-10 C22orf46  chromosome 22 putative open reading frame 46  C22orf46  chromosome 22 open reading frame 46  Symbol and/or name change 19259463 PROVISIONAL
2011-07-27 C22orf46  chromosome 22 open reading frame 46  FLJ23584  hypothetical FLJ23584  Symbol and/or name change 5135510 APPROVED