C2h1orf52 (similar to human chromosome 1 open reading frame 52) - Rat Genome Database

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Gene: C2h1orf52 (similar to human chromosome 1 open reading frame 52) Rattus norvegicus
Analyze
Symbol: C2h1orf52
Name: similar to human chromosome 1 open reading frame 52
RGD ID: 1560065
Description: Predicted to be located in nucleoplasm. Orthologous to human C1orf52 (chromosome 1 open reading frame 52); INTERACTS WITH bisphenol A; fenvalerate; furan.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: hypothetical protein LOC499724; LOC499724; RGD1560065; similar to RIKEN cDNA 2410004B18; uncharacterized protein LOC499724; UPF0690 protein C1orf52 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
GRCr82237,510,974 - 237,520,346 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl2237,513,711 - 237,520,346 (+)EnsemblGRCr8
mRatBN7.22234,853,378 - 234,860,045 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2234,853,410 - 234,860,040 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx2242,645,681 - 242,652,348 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.02240,535,997 - 240,542,623 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.02235,403,300 - 235,409,967 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.02251,817,862 - 251,824,784 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2251,817,694 - 251,824,784 (+)Ensemblrn6Rnor6.0
Rnor_5.02270,342,994 - 270,349,932 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.42244,129,298 - 244,135,911 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera2226,835,470 - 226,841,562 (+)NCBICelera
Cytogenetic Map2q44NCBI
JBrowse:




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

Cellular Component
nucleoplasm  (IEA,ISO)

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:22658674  


Genomics

Comparative Map Data
C2h1orf52
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr82237,510,974 - 237,520,346 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl2237,513,711 - 237,520,346 (+)EnsemblGRCr8
mRatBN7.22234,853,378 - 234,860,045 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2234,853,410 - 234,860,040 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx2242,645,681 - 242,652,348 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.02240,535,997 - 240,542,623 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.02235,403,300 - 235,409,967 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.02251,817,862 - 251,824,784 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2251,817,694 - 251,824,784 (+)Ensemblrn6Rnor6.0
Rnor_5.02270,342,994 - 270,349,932 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.42244,129,298 - 244,135,911 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera2226,835,470 - 226,841,562 (+)NCBICelera
Cytogenetic Map2q44NCBI
C1orf52
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38185,249,953 - 85,259,662 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl185,249,953 - 85,259,672 (-)Ensemblhg38GRCh38
GRCh37185,715,636 - 85,725,345 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36185,490,244 - 85,497,913 (-)NCBIBuild 36Build 36hg18NCBI36
Build 34185,429,676 - 85,437,346NCBI
Celera183,960,049 - 83,969,784 (-)NCBICelera
Cytogenetic Map1p22.3NCBI
HuRef183,826,606 - 83,836,344 (-)NCBIHuRef
CHM1_1185,831,237 - 85,840,978 (-)NCBICHM1_1
T2T-CHM13v2.0185,091,053 - 85,100,781 (-)NCBIT2T-CHM13v2.0
2410004B18Rik
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm393145,643,769 - 145,650,584 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl3145,643,769 - 145,650,584 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm383145,938,014 - 145,944,829 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl3145,938,014 - 145,944,829 (+)Ensemblmm10GRCm38
MGSCv373145,600,996 - 145,607,239 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv363145,875,418 - 145,881,661 (+)NCBIMGSCv36mm8
Celera3152,391,563 - 152,397,806 (+)NCBICelera
Cytogenetic Map3H2NCBI
cM Map371.03NCBI
CUNH1orf52
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554238,728,750 - 8,736,738 (+)Ensembl
ChiLan1.0NW_0049554238,728,976 - 8,735,511 (+)NCBIChiLan1.0ChiLan1.0
C1H1orf52
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21141,673,468 - 141,683,223 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11140,828,808 - 140,838,566 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01117,809,571 - 117,817,306 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1186,663,906 - 86,673,613 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl186,663,906 - 86,673,613 (-)EnsemblpanPan2panpan1.1
C6H1orf52
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1662,729,128 - 62,740,386 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl662,729,136 - 62,736,975 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha665,377,807 - 65,388,879 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0663,269,031 - 63,280,310 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl663,269,056 - 63,280,310 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1662,796,221 - 62,807,491 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0662,766,527 - 62,777,560 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0663,273,995 - 63,285,453 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
CUNH1orf52
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440505895,843,813 - 95,851,686 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936608454,393 - 462,222 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_004936608454,354 - 462,222 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
C4H1orf52
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl4130,659,924 - 130,662,089 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.14130,659,924 - 130,690,095 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.24143,251,502 - 143,259,391 (+)NCBISscrofa10.2Sscrofa10.2susScr3
C20H1orf52
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12048,090,667 - 48,097,968 (+)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366603369,709,225 - 69,718,675 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
CUNH1orf52
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474212,230,420 - 12,236,711 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462474212,230,391 - 12,236,743 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
C3H1orf52
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v1314,946,789 - 14,953,463 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in C2h1orf52
47 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:519
Count of miRNA genes:263
Interacting mature miRNAs:326
Transcripts:ENSRNOT00000019964
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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1331734Bp204Blood pressure QTL 2043.61192arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2170656145239614549Rat
1331767Hrtrt12Heart rate QTL 123.373heart pumping trait (VT:2000009)heart rate (CMO:0000002)2221088977243501206Rat
631501Bp101Blood pressure QTL 1012.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2205135267250135267Rat
2307174Activ3Activity QTL 34.830.000058locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)2210956252251712708Rat
8693697Alc36Alcohol consumption QTL 3620.592drinking behavior trait (VT:0001422)calculated ethanol drink intake rate (CMO:0001615)2219814164239320906Rat
1331794Bp202Blood pressure QTL 2023.66819arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2143344967251712708Rat
1298075Scl17Serum cholesterol level QTL 173.4blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)2214404877251712708Rat
1331805Cm29Cardiac mass QTL 293.50746heart mass (VT:0007028)heart wet weight (CMO:0000069)2143344967251712708Rat
2293833Kiddil8Kidney dilation QTL 82.9kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)2220274283249795005Rat
1598835Anxrr18Anxiety related response QTL 182.98body movement coordination trait (VT:0005424)number of rearing movements in an experimental apparatus (CMO:0001752)2203664411248664411Rat
1300126Bp175Blood pressure QTL 1753.46arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2204795005249795005Rat
7207490Bss111Bone structure and strength QTL 1116.4femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)2214404877251712708Rat
7207484Bss108Bone structure and strength QTL 1085.3femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)2214404877251712708Rat
2313073Bmd75Bone mineral density QTL 754.10.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)2218051934251712708Rat
8693622Alc26Alcohol consumption QTL 262.40.667drinking behavior trait (VT:0001422)calculated ethanol drink intake rate (CMO:0001615)2223810546243965570Rat
7207482Bss107Bone structure and strength QTL 1077femur strength trait (VT:0010010)femur ultimate force (CMO:0001675)2214404877251712708Rat
2293844Kiddil7Kidney dilation QTL 73.5kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)2220274283249795005Rat
1641891Alcrsp17Alcohol response QTL 17response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)2151869660251712708Rat
2317752Glom23Glomerulus QTL 233.6urine protein amount (VT:0005160)urine protein level (CMO:0000591)2196140964251540988Rat
61467Bp14Blood pressure QTL 142.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2205135267250135267Rat
1549836Bss2Bone structure and strength QTL 27.5femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)2214404877251712708Rat
70175BpQTLCluster3Blood pressure QTL cluster 34.128arterial blood pressure trait (VT:2000000)absolute change in systolic blood pressure (CMO:0000607)2205135267250135267Rat

Markers in Region
BI277858  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22234,859,076 - 234,859,281 (+)MAPPERmRatBN7.2
Rnor_6.02251,823,816 - 251,824,020NCBIRnor6.0
Rnor_5.02270,348,964 - 270,349,168UniSTSRnor5.0
RGSC_v3.42244,134,950 - 244,135,154UniSTSRGSC3.4
Celera2226,840,601 - 226,840,805UniSTS
Cytogenetic Map2q44UniSTS
RH136911  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22234,859,825 - 234,859,977 (+)MAPPERmRatBN7.2
Rnor_6.02251,824,565 - 251,824,716NCBIRnor6.0
Rnor_5.02270,349,713 - 270,349,864UniSTSRnor5.0
RGSC_v3.42244,135,699 - 244,135,850UniSTSRGSC3.4
Celera2226,841,350 - 226,841,501UniSTS
Cytogenetic Map2q44UniSTS


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 67 164 91 90 59 92 59 6 356 192 11 143 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000019964   ⟹   ENSRNOP00000019964
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl2237,513,726 - 237,520,344 (+)Ensembl
mRatBN7.2 Ensembl2234,853,433 - 234,860,040 (+)Ensembl
Rnor_6.0 Ensembl2251,817,694 - 251,824,784 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000113355   ⟹   ENSRNOP00000096146
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl2237,513,711 - 237,520,346 (+)Ensembl
mRatBN7.2 Ensembl2234,853,410 - 234,859,487 (+)Ensembl
RefSeq Acc Id: NM_001395135   ⟹   NP_001382064
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr82237,513,711 - 237,520,346 (+)NCBI
mRatBN7.22234,853,410 - 234,860,045 (+)NCBI
RefSeq Acc Id: XR_010063657
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr82237,510,974 - 237,514,708 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001382064 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL82412 (Get FASTA)   NCBI Sequence Viewer  
  EDL82413 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000019964.7
  ENSRNOP00000096146
  ENSRNOP00000096146.1
Ensembl Acc Id: ENSRNOP00000019964   ⟸   ENSRNOT00000019964
Ensembl Acc Id: ENSRNOP00000096146   ⟸   ENSRNOT00000113355
RefSeq Acc Id: NP_001382064   ⟸   NM_001395135
- UniProtKB: A0A8I6AL75 (UniProtKB/TrEMBL),   A6HWC6 (UniProtKB/TrEMBL)

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D4A6E8-F1-model_v2 AlphaFold D4A6E8 1-181 view protein structure

Transcriptome

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

Promoters
RGD ID:13691810
Promoter ID:EPDNEW_R2335
Type:multiple initiation site
Name:RGD1560065_1
Description:similar to RIKEN cDNA 2410004B18
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_6.02251,817,866 - 251,817,926EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1560065 AgrOrtholog
BioCyc Gene G2FUF-50915 BioCyc
Ensembl Genes ENSRNOG00000014857 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000019964.8 UniProtKB/TrEMBL
  ENSRNOT00000113355 ENTREZGENE
  ENSRNOT00000113355.2 UniProtKB/TrEMBL
InterPro DUF4660 UniProtKB/TrEMBL
NCBI Gene 499724 ENTREZGENE
PANTHER UPF0690 PROTEIN C1ORF52 UniProtKB/TrEMBL
  UPF0690 PROTEIN C1ORF52 UniProtKB/TrEMBL
Pfam DUF4660 UniProtKB/TrEMBL
PhenoGen C2h1orf52 PhenoGen
RatGTEx ENSRNOG00000014857 RatGTEx
UniProt A0A8I6AL75 ENTREZGENE, UniProtKB/TrEMBL
  A6HWC6 ENTREZGENE, UniProtKB/TrEMBL
  D4A6E8_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2022-06-24 C2h1orf52  similar to human chromosome 1 open reading frame 52  RGD1560065  similar to RIKEN cDNA 2410004B18  Name and Symbol changed 629549 APPROVED
2008-04-30 RGD1560065  similar to RIKEN cDNA 2410004B18   RGD1560065_predicted  similar to RIKEN cDNA 2410004B18 (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-07 RGD1560065_predicted  similar to RIKEN cDNA 2410004B18 (predicted)  LOC499724  similar to RIKEN cDNA 2410004B18  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC499724  similar to RIKEN cDNA 2410004B18      Symbol and Name status set to provisional 70820 PROVISIONAL