C11h3orf38 (similar to human chromosome 3 open reading frame 38) - Rat Genome Database

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Gene: C11h3orf38 (similar to human chromosome 3 open reading frame 38) Rattus norvegicus
Analyze
Symbol: C11h3orf38
Name: similar to human chromosome 3 open reading frame 38
RGD ID: 1359320
Description: Predicted to be involved in positive regulation of apoptotic process. Predicted to be located in nucleus. Orthologous to human C3orf38 (chromosome 3 open reading frame 38); INTERACTS WITH bisphenol A; 3-isobutyl-1-methyl-7H-xanthine (ortholog); 4,4'-sulfonyldiphenol (ortholog).
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: hypothetical protein LOC304176; MGC95208; similar to 4930453N24Rik protein; uncharacterized protein C3orf38 homolog
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
GRCr81115,930,504 - 15,935,152 (-)NCBIGRCr8
mRatBN7.2112,483,983 - 2,488,631 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl112,481,189 - 2,488,660 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1111,080,028 - 11,084,676 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0113,873,073 - 3,877,721 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0112,978,111 - 2,982,759 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0111,814,294 - 1,818,942 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl111,814,294 - 1,819,094 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0111,794,870 - 1,799,518 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4112,100,191 - 2,104,839 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1112,100,191 - 2,104,839 (-)NCBI
Celera112,465,526 - 2,470,174 (-)NCBICelera
Cytogenetic Map11p12NCBI
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
nucleus  (ISO)

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
2. GOA pipeline RGD automated data pipeline
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
4. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
Additional References at PubMed
PMID:15489334   PMID:17464193  


Genomics

Comparative Map Data
C11h3orf38
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81115,930,504 - 15,935,152 (-)NCBIGRCr8
mRatBN7.2112,483,983 - 2,488,631 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl112,481,189 - 2,488,660 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1111,080,028 - 11,084,676 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0113,873,073 - 3,877,721 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0112,978,111 - 2,982,759 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0111,814,294 - 1,818,942 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl111,814,294 - 1,819,094 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0111,794,870 - 1,799,518 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4112,100,191 - 2,104,839 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1112,100,191 - 2,104,839 (-)NCBI
Celera112,465,526 - 2,470,174 (-)NCBICelera
Cytogenetic Map11p12NCBI
C3orf38
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38388,149,959 - 88,157,965 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl388,149,959 - 88,168,729 (+)EnsemblGRCh38hg38GRCh38
GRCh37388,199,109 - 88,207,115 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36388,281,799 - 88,288,758 (+)NCBINCBI36Build 36hg18NCBI36
Celera388,952,867 - 88,961,107 (+)NCBICelera
Cytogenetic Map3p11.1NCBI
HuRef388,212,400 - 88,220,640 (+)NCBIHuRef
CHM1_1388,152,011 - 88,160,251 (+)NCBICHM1_1
T2T-CHM13v2.0388,225,792 - 88,233,961 (+)NCBIT2T-CHM13v2.0
4930453N24Rik
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391664,583,267 - 64,592,735 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1664,572,114 - 64,591,524 (-)EnsemblGRCm39 Ensembl
GRCm381664,762,205 - 64,772,372 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1664,751,751 - 64,771,161 (-)EnsemblGRCm38mm10GRCm38
MGSCv371664,765,931 - 64,770,765 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361664,704,338 - 64,713,363 (-)NCBIMGSCv36mm8
Celera1665,060,850 - 65,065,575 (-)NCBICelera
Cytogenetic Map16C1.3NCBI
cM Map1637.1NCBI
CUNH3orf38
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554075,343,010 - 5,348,508 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554075,339,389 - 5,348,894 (-)NCBIChiLan1.0ChiLan1.0
C2H3orf38
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2288,306,603 - 88,315,337 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1388,311,795 - 88,320,125 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0388,288,113 - 88,296,373 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1390,400,274 - 90,408,512 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl390,400,274 - 90,408,512 (+)Ensemblpanpan1.1panPan2
C33H3orf38
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13313,647 - 22,117 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3313,656 - 19,687 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha33190,654 - 197,955 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03329,736 - 39,423 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3329,998 - 38,219 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13319,222 - 30,933 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0337 - 5,711 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.033200,394 - 203,903 (+)NCBIUU_Cfam_GSD_1.0
UU_Cfam_GSD_1.033183,758 - 186,091 (-)NCBIUU_Cfam_GSD_1.0
CUNH3orf38
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244049711,586,330 - 1,591,888 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366101,586,560 - 1,591,798 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366101,586,336 - 1,591,942 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
C13H3orf38
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl13167,789,645 - 167,803,754 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.113167,790,016 - 167,803,786 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
CUNH3orf38
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12288,765,251 - 88,775,095 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2288,766,552 - 88,775,211 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604177,937,587 - 77,947,359 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
CUNH3orf38
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247894,535,284 - 4,543,204 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247894,535,422 - 4,542,890 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in C11h3orf38
14 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:141
Count of miRNA genes:119
Interacting mature miRNAs:121
Transcripts:ENSRNOT00000000911
Prediction methods:Microtar, Miranda, Rnahybrid
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
634341Bw121Body weight QTL 1213.56abdominal fat pad mass (VT:1000711)abdominal fat pad weight (CMO:0000088)11121836709Rat
1598842Glom10Glomerulus QTL 103.4kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)11135331169Rat
1300147Bp187Blood pressure QTL 1873.67arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)11169446234Rat
1558659Tescar1Testicular tumor resistance QTL 13.9testis integrity trait (VT:0010572)percentage of study population developing testis tumors during a period of time (CMO:0001261)11104193166113562Rat

Markers in Region
RH131187  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_5.0X21,309,037 - 21,309,219NCBIRnor5.0
Rnor_5.0X22,416,030 - 22,416,212NCBIRnor5.0
Rnor_5.0111,794,891 - 1,795,073NCBIRnor5.0
RGSC_v3.4112,100,213 - 2,100,394UniSTSRGSC3.4
RGSC_v3.4X40,840,175 - 40,840,356UniSTSRGSC3.4
Celera112,465,548 - 2,465,729UniSTS
CeleraX20,747,574 - 20,747,755UniSTS
Cytogenetic Map11p12UniSTS


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 4 13 7 17 7 39 22 40 11
Low 39 44 34 2 34 8 11 35 13 1 8
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000000911   ⟹   ENSRNOP00000000911
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl112,483,795 - 2,488,646 (-)Ensembl
Rnor_6.0 Ensembl111,814,294 - 1,819,094 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000097208   ⟹   ENSRNOP00000085014
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl112,481,189 - 2,488,660 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000114325   ⟹   ENSRNOP00000082097
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl112,483,795 - 2,487,430 (-)Ensembl
RefSeq Acc Id: NM_001005552   ⟹   NP_001005552
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81115,930,504 - 15,935,152 (-)NCBI
mRatBN7.2112,483,983 - 2,488,631 (-)NCBI
Rnor_6.0111,814,294 - 1,818,942 (-)NCBI
Rnor_5.0111,794,870 - 1,799,518 (-)NCBI
RGSC_v3.4112,100,191 - 2,104,839 (-)RGD
Celera112,465,526 - 2,470,174 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001005552 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH82055 (Get FASTA)   NCBI Sequence Viewer  
  AAH91244 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000000911
  ENSRNOP00000000911.3
  ENSRNOP00000082097.1
  ENSRNOP00000085014.1
GenBank Protein Q66H33 (Get FASTA)   NCBI Sequence Viewer  
Reference Protein Sequences
RefSeq Acc Id: NP_001005552   ⟸   NM_001005552
- UniProtKB: Q66H33 (UniProtKB/Swiss-Prot),   A0A8I6A2B5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000000911   ⟸   ENSRNOT00000000911
RefSeq Acc Id: ENSRNOP00000085014   ⟸   ENSRNOT00000097208
RefSeq Acc Id: ENSRNOP00000082097   ⟸   ENSRNOT00000114325

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q66H33-F1-model_v2 AlphaFold Q66H33 1-348 view protein structure

Transcriptome

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

Promoters
RGD ID:13697999
Promoter ID:EPDNEW_R8523
Type:multiple initiation site
Name:MGC95208_1
Description:similar to 4930453N24Rik protein
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_6.0111,818,949 - 1,819,009EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1359320 AgrOrtholog
BioCyc Gene G2FUF-22322 BioCyc
Ensembl Genes ENSRNOG00000000720 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000000911 ENTREZGENE
  ENSRNOT00000000911.6 UniProtKB/Swiss-Prot
  ENSRNOT00000097208.1 UniProtKB/TrEMBL
  ENSRNOT00000114325.1 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7132244 IMAGE-MGC_LOAD
  IMAGE:7365330 IMAGE-MGC_LOAD
InterPro NTF2-like_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  UPF_C3orf38 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:304176 UniProtKB/Swiss-Prot
MGC_CLONE MGC:109021 IMAGE-MGC_LOAD
  MGC:95208 IMAGE-MGC_LOAD
NCBI Gene 304176 ENTREZGENE
PANTHER CHROMOSOME 3 OPEN READING FRAME 38 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR21084 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam DUF4518 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen C11h3orf38 PhenoGen
RatGTEx ENSRNOG00000000720 RatGTEx
Superfamily-SCOP SSF54427 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A8I6A2B5 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6G6Z5_RAT UniProtKB/TrEMBL
  CC038_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2022-06-28 C11h3orf38  similar to human chromosome 3 open reading frame 38  MGC95208  similar to 4930453N24Rik protein  Name and Symbol changed 629549 APPROVED
2005-07-29 MGC95208  similar to 4930453N24Rik protein      Symbol and Name status set to provisional 70820 PROVISIONAL