C7h12orf54 (similar to human chromosome 12 open reading frame 54) - 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 Behavioral & Substance Use Disorder 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: C7h12orf54 (similar to human chromosome 12 open reading frame 54) Rattus norvegicus
Analyze
Symbol: C7h12orf54 (Ensembl: AC103129.4)
Name: similar to human chromosome 12 open reading frame 54
RGD ID: 1590570
Description: Orthologous to human C12orf54 (chromosome 12 open reading frame 54); INTERACTS WITH (-)-demecolcine (ortholog); arsane (ortholog); arsenic atom (ortholog).
Type: ncrna (Ensembl: lincRNA)
RefSeq Status: VALIDATED
Previously known as: hypothetical protein LOC680590; LOC680590
RGD Orthologs
Human
Mouse
Chinchilla
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr87131,408,859 - 131,427,722 (+)NCBIGRCr8GRCr8GRCr8
mRatBN7.27129,529,811 - 129,548,676 (+)NCBImRatBN7.2mRatBN7.2
UTH_Rnor_SHR_Utx7131,336,559 - 131,355,348 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.07133,562,095 - 133,580,880 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.07133,474,577 - 133,493,368 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.07139,992,640 - 140,011,539 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl7139,992,579 - 139,998,730 (+)Ensemblrn6Rnor6.0
Rnor_5.07139,135,045 - 139,155,352 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.47137,119,379 - 137,129,853 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera7126,021,452 - 126,040,016 (+)NCBICelera
Cytogenetic Map7q36NCBI
JBrowse:




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

Cellular Component

References

References - curated
# Reference Title Reference Citation
1. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions

Genomics

Comparative Map Data
C7h12orf54
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr87131,408,859 - 131,427,722 (+)NCBIGRCr8GRCr8GRCr8
mRatBN7.27129,529,811 - 129,548,676 (+)NCBImRatBN7.2mRatBN7.2
UTH_Rnor_SHR_Utx7131,336,559 - 131,355,348 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.07133,562,095 - 133,580,880 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.07133,474,577 - 133,493,368 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.07139,992,640 - 140,011,539 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl7139,992,579 - 139,998,730 (+)Ensemblrn6Rnor6.0
Rnor_5.07139,135,045 - 139,155,352 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.47137,119,379 - 137,129,853 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera7126,021,452 - 126,040,016 (+)NCBICelera
Cytogenetic Map7q36NCBI
C12orf54
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381248,413,154 - 48,496,524 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1248,482,498 - 48,496,524 (+)Ensemblhg38GRCh38
GRCh371248,876,281 - 48,890,307 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361247,163,290 - 47,176,434 (+)NCBIBuild 36Build 36hg18NCBI36
Celera1247,672,318 - 47,686,326 (+)NCBICelera
Cytogenetic Map12q13.11NCBI
HuRef1245,910,306 - 45,924,313 (+)NCBIHuRef
CHM1_11248,841,576 - 48,855,607 (+)NCBICHM1_1
T2T-CHM13v2.01248,374,469 - 48,458,370 (+)NCBIT2T-CHM13v2.0
1700031M16Rik
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391598,296,326 - 98,314,016 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1598,296,946 - 98,311,456 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm39 Ensembl1598,296,270 - 98,314,154 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm381598,398,445 - 98,416,135 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1598,398,419 - 98,416,268 (+)Ensemblmm10GRCm38
MGSCv371598,228,876 - 98,246,566 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361598,226,455 - 98,241,624 (+)NCBIMGSCv36mm8
Celera15100,553,583 - 100,571,029 (+)NCBICelera
Cytogenetic Map15F1NCBI
cM Map1554.4NCBI
LOC102026235
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555007,358,040 - 7,376,148 (+)Ensembl
ChiLan1.0NW_0049555007,358,057 - 7,376,070 (+)NCBIChiLan1.0ChiLan1.0
C27H12orf54
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1276,139,800 - 6,166,750 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2740,123,743 - 40,150,675 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0276,200,738 - 6,227,697 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl276,202,097 - 6,227,324 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1276,156,925 - 6,183,642 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0276,152,940 - 6,179,771 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02740,430,241 - 40,457,172 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
CUNH12orf54
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494566,809,632 - 66,823,180 (-)NCBIHiC_Itri_2
C5H12orf54
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl578,928,241 - 78,942,774 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1578,928,303 - 78,944,378 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2582,146,972 - 82,163,892 (-)NCBISscrofa10.2Sscrofa10.2susScr3
C11H12orf54
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11144,721,310 - 44,736,144 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1144,722,130 - 44,734,685 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_023666037201,423,868 - 201,437,965 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
CUNH12orf54
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248163,702,411 - 3,713,270 (-)NCBIHetGla 1.0HetGla 1.0hetGla2

Variants

.
Variants in C7h12orf54
240 total Variants

QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
631529Tls2T-lymphoma susceptibility QTL 200.001thymus integrity trait (VT:0010555)percentage of study population developing T-cell lymphomas during a period of time (CMO:0001911)782111382132099989Rat
1354582Stl11Serum triglyceride level QTL 113.42blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)7121393075137014596Rat
731176Glom5Glomerulus QTL 52.50.0035kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)798549867137014596Rat
1300112Bp183Blood pressure QTL 1833.51arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)7119280025135560836Rat
1331731Bp216Blood pressure QTL 2162.851arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)7104186212135371468Rat
631687Hcas1Hepatocarcinoma susceptibility QTL 13.90.001liver integrity trait (VT:0010547)liver tumorous lesion volume to total liver volume ratio (CMO:0001082)793302009131686183Rat
1331748Bp215Blood pressure QTL 2154.043arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)7110725024135371468Rat
61428Scl3Serum cholesterol level QTL 33.2blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)7100548246137014596Rat
61397Bw17Body weight QTL 176.3body mass (VT:0001259)body weight (CMO:0000012)795485047137014596Rat
1331746Kidm9Kidney mass QTL 93.934kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)782111245134948181Rat
1358914Bp266Blood pressure QTL 266arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)7115313999136544683Rat
2299163Iddm34Insulin dependent diabetes mellitus QTL 342.71blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)7116269196132020414Rat
1549899Stresp8Stress response QTL 84.370.0008stress-related behavior trait (VT:0010451)defensive burying duration (CMO:0001961)792362341137014596Rat
1358891Bp265Blood pressure QTL 2652.21arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)771827901136544683Rat

Markers in Region
D7Got254  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.27129,530,199 - 129,530,382 (+)MAPPERmRatBN7.2
Rnor_6.07139,993,029 - 139,993,209NCBIRnor6.0
Rnor_5.07139,136,470 - 139,136,650UniSTSRnor5.0
RGSC_v3.47137,124,260 - 137,124,440UniSTSRGSC3.4
Celera7126,021,812 - 126,021,992UniSTS
Cytogenetic Map7q36UniSTS


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
9 2 12 86 74 70 49 21 49 6 173 53 4 66 60 53 21 8 8

Sequence


Ensembl Acc Id: ENSRNOT00000084402
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl7139,992,579 - 139,998,730 (+)Ensembl
RefSeq Acc Id: NR_036618
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr87131,408,859 - 131,427,722 (+)NCBI
mRatBN7.27129,529,811 - 129,548,676 (+)NCBI
Rnor_6.07139,992,640 - 140,011,539 (+)NCBI
Rnor_5.07139,135,045 - 139,155,352 (+)NCBI
Celera7126,021,452 - 126,040,016 (+)NCBI
Sequence:
Protein Sequences
GenBank Protein EDL87063 (Get FASTA)   NCBI Sequence Viewer  
  EDL87066 (Get FASTA)   NCBI Sequence Viewer  

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1590570 AgrOrtholog
BioCyc Gene G2FUF-32142 BioCyc
Ensembl Genes ENSRNOG00000058860 Ensembl
NCBI Gene 680590 ENTREZGENE
PhenoGen C7h12orf54 PhenoGen
RatGTEx ENSRNOG00000058860 RatGTEx
RNAcentral URS00007E41EE RNACentral


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2023-04-13 C7h12orf54  similar to human chromosome 12 open reading frame 54  LOC680590  hypothetical protein LOC680590  Name and Symbol changed 629549 APPROVED
2006-11-20 LOC680590  hypothetical protein LOC680590      Symbol and Name status set to provisional 70820 PROVISIONAL