C11h22orf39 (similar to human chromosome 22 open reading frame 39) - Rat Genome Database

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Gene: C11h22orf39 (similar to human chromosome 22 open reading frame 39) Rattus norvegicus
Analyze
Symbol: C11h22orf39
Name: similar to human chromosome 22 open reading frame 39
RGD ID: 1595717
Description: Predicted to be involved in negative regulation of long-term synaptic potentiation. Predicted to be located in synapse and synaptic cleft. Orthologous to human C22orf39 (chromosome 22 open reading frame 39); INTERACTS WITH bisphenol A; (+)-catechin (ortholog); 3-isobutyl-1-methyl-7H-xanthine (ortholog).
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: hypothetical protein LOC498122; LOC498122; similar to CG15908-PA; uncharacterized protein LOC498122; UPF0545 protein C22orf39 homolog
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
GRCr81195,660,135 - 95,665,750 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1195,663,881 - 95,664,588 (-)EnsemblGRCr8
mRatBN7.21182,155,992 - 82,160,235 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1182,159,528 - 82,160,235 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1190,885,310 - 90,889,571 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01183,546,530 - 83,550,791 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01182,599,798 - 82,604,059 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01186,299,210 - 86,303,453 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1186,299,210 - 86,303,453 (-)Ensemblrn6Rnor6.0
Rnor_5.01189,401,176 - 89,405,419 (-)NCBIRnor_5.0Rnor_5.0rn5
Celera1180,936,482 - 80,940,725 (-)NCBICelera
Cytogenetic Map11q23NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
mitochondrion  (ISO)
synapse  (ISO)
synaptic cleft  (IEA,ISO)

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:34800366  


Genomics

Comparative Map Data
C11h22orf39
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81195,660,135 - 95,665,750 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1195,663,881 - 95,664,588 (-)EnsemblGRCr8
mRatBN7.21182,155,992 - 82,160,235 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1182,159,528 - 82,160,235 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1190,885,310 - 90,889,571 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01183,546,530 - 83,550,791 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01182,599,798 - 82,604,059 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01186,299,210 - 86,303,453 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1186,299,210 - 86,303,453 (-)Ensemblrn6Rnor6.0
Rnor_5.01189,401,176 - 89,405,419 (-)NCBIRnor_5.0Rnor_5.0rn5
Celera1180,936,482 - 80,940,725 (-)NCBICelera
Cytogenetic Map11q23NCBI
C22orf39
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382219,440,886 - 19,447,711 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2219,351,368 - 19,447,711 (-)Ensemblhg38GRCh38
GRCh372219,428,409 - 19,435,234 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362217,810,894 - 17,815,220 (-)NCBIBuild 36Build 36hg18NCBI36
Celera223,280,666 - 3,288,012 (-)NCBICelera
Cytogenetic Map22q11.21NCBI
HuRef223,049,221 - 3,056,567 (-)NCBIHuRef
CHM1_12219,427,982 - 19,435,325 (-)NCBICHM1_1
T2T-CHM13v2.02219,817,716 - 19,824,539 (-)NCBIT2T-CHM13v2.0
2510002D24Rik
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391618,655,263 - 18,658,910 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1618,655,328 - 18,658,910 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm381618,836,580 - 18,840,113 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1618,836,578 - 18,840,160 (+)Ensemblmm10GRCm38
MGSCv371618,836,673 - 18,840,206 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361618,750,154 - 18,753,503 (+)NCBIMGSCv36mm8
Celera1619,410,637 - 19,414,170 (+)NCBICelera
Cytogenetic Map16A3NCBI
cM Map1611.67NCBI
CUNH22orf39
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495544218,570,867 - 18,576,076 (+)Ensembl
ChiLan1.0NW_00495544218,570,867 - 18,575,809 (+)NCBIChiLan1.0ChiLan1.0
C23H22orf39
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22329,065,830 - 29,072,733 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12231,613,548 - 31,620,575 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0222,200,164 - 2,207,473 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12217,875,330 - 17,882,694 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2217,875,330 - 17,882,694 (-)EnsemblpanPan2panpan1.1
C26H22orf39
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12629,765,870 - 29,770,079 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2629,765,936 - 29,769,471 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha2629,721,278 - 29,725,460 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.02631,167,718 - 31,171,885 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2631,167,707 - 31,172,044 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12629,215,010 - 29,219,178 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02628,840,415 - 28,844,599 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02629,927,353 - 29,931,531 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
CUNH22orf39
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118139,360,729 - 139,365,635 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366193,388,427 - 3,393,253 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049366193,388,427 - 3,393,299 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
C14H22orf39
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1451,106,991 - 51,112,359 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.11451,106,984 - 51,112,385 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21454,674,018 - 54,679,446 (-)NCBISscrofa10.2Sscrofa10.2susScr3
C19H22orf39
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1196,307,277 - 6,312,609 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl196,307,916 - 6,311,459 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_023666085618,793 - 626,347 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
CUNH22orf39
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624747103,310 - 107,382 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_004624747101,938 - 109,335 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
C4H22orf39
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v144,097,019 - 4,101,214 (+)NCBIRrattus_CSIRO_v1

miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:145
Count of miRNA genes:115
Interacting mature miRNAs:128
Transcripts:ENSRNOT00000071453
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
70208Niddm22Non-insulin dependent diabetes mellitus QTL 223.61blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)117330848796070872Rat
1581565Pur10Proteinuria QTL 100.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)115827236396350770Rat
4889859Pur28Proteinuria QTL 2819.50.001urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)115892833699753367Rat
1549848Bvd6Brain ventricular dilatation QTL 63.10.0001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)117961851999753367Rat
10450831Scl80Serum cholesterol level QTL 804.70.01blood LDL cholesterol amount (VT:0000181)blood low density lipoprotein cholesterol level (CMO:0000053)119046178196556255Rat
10058954Gmadr7Adrenal mass QTL 72.490.0049adrenal gland mass (VT:0010420)both adrenal glands wet weight to body weight ratio (CMO:0002411)117385089499753367Rat
1300135Rf19Renal function QTL 193.38blood creatinine amount (VT:0005328)creatinine clearance (CMO:0000765)115441539196071021Rat
1354656Bvd3Brain ventricular dilatation QTL 33.640.001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)118295102896351019Rat
2312566Glom20Glomerulus QTL 203.60.001kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)115775483796071021Rat
724563Uae10Urinary albumin excretion QTL 106urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)112019354996351019Rat
724561Plsm4Polydactyly-luxate syndrome (PLS) morphotypes QTL 40.0003forelimb integrity trait (VT:0010562)front foot phalanges count (CMO:0001947)116796218499753367Rat
631506Bp104Blood pressure QTL 1042.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)117330831599753367Rat
4889521Gluco62Glucose level QTL 622.820.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)116859932196497754Rat
7411658Foco27Food consumption QTL 2716.20.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)116985594399753367Rat
1581572Uae35Urinary albumin excretion QTL 350.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)115827236396350770Rat
1300110Stl7Serum triglyceride level QTL 74.64blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)115107102196071021Rat

Markers in Region
RH134555  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21182,161,917 - 82,162,102 (+)MAPPERmRatBN7.2
Rnor_6.01186,305,136 - 86,305,320NCBIRnor6.0
Rnor_5.01189,407,102 - 89,407,286UniSTSRnor5.0
Celera1180,942,408 - 80,942,592UniSTS
RH 3.4 Map11697.2UniSTS
Cytogenetic Map11p12UniSTS


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 67 162 91 90 59 91 59 6 355 191 11 141 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000071453   ⟹   ENSRNOP00000066879
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1195,663,881 - 95,664,588 (-)Ensembl
mRatBN7.2 Ensembl1182,159,528 - 82,160,235 (-)Ensembl
Rnor_6.0 Ensembl1186,299,210 - 86,303,453 (-)Ensembl
RefSeq Acc Id: NM_001109058   ⟹   NP_001102528
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81195,660,345 - 95,664,588 (-)NCBI
mRatBN7.21182,155,992 - 82,160,235 (-)NCBI
Rnor_6.01186,299,210 - 86,303,453 (-)NCBI
Rnor_5.01189,401,176 - 89,405,419 (-)NCBI
Celera1180,936,482 - 80,940,725 (-)RGD
Sequence:
RefSeq Acc Id: XM_063270721   ⟹   XP_063126791
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81195,660,135 - 95,665,750 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001102528 (Get FASTA)   NCBI Sequence Viewer  
  XP_063126791 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL77961 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000066879.2
RefSeq Acc Id: NP_001102528   ⟸   NM_001109058
- UniProtKB: A6JSE6 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000066879   ⟸   ENSRNOT00000071453
RefSeq Acc Id: XP_063126791   ⟸   XM_063270721
- Peptide Label: isoform X1
- UniProtKB: M0RBE6 (UniProtKB/TrEMBL)

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-M0RBE6-F1-model_v2 AlphaFold M0RBE6 1-105 view protein structure

Transcriptome

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

Promoters
RGD ID:13698296
Promoter ID:EPDNEW_R8819
Type:multiple initiation site
Name:LOC498122_1
Description:similar to CG15908-PA
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_6.01186,303,442 - 86,303,502EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1595717 AgrOrtholog
BioCyc Gene G2FUF-20674 BioCyc
Ensembl Genes ENSRNOG00000048861 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000071453.3 UniProtKB/TrEMBL
InterPro DUF3128 UniProtKB/TrEMBL
KEGG Report rno:498122 UniProtKB/TrEMBL
NCBI Gene 498122 ENTREZGENE
PANTHER PTHR28052 UniProtKB/TrEMBL
  UPF0545 PROTEIN C22ORF39 UniProtKB/TrEMBL
Pfam DUF3128 UniProtKB/TrEMBL
PhenoGen C11h22orf39 PhenoGen
RatGTEx ENSRNOG00000048861 RatGTEx
UniProt A6JSE6 ENTREZGENE, UniProtKB/TrEMBL
  M0RBE6 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2023-09-19 C11h22orf39  similar to human chromosome 22 open reading frame 39  LOC498122  similar to CG15908-PA  Symbol and Name Changed 1299863 APPROVED
2006-11-20 LOC498122  similar to CG15908-PA      Symbol and Name status set to provisional 70820 PROVISIONAL