C2h4orf54 (similar to human chromosome 4 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 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: C2h4orf54 (similar to human chromosome 4 open reading frame 54) Rattus norvegicus
Analyze
Symbol: C2h4orf54
Name: similar to human chromosome 4 open reading frame 54
RGD ID: 7695964
Description: Orthologous to human C4orf54 (chromosome 4 open reading frame 54); INTERACTS WITH lipopolysaccharide (ortholog); S-(1,2-dichlorovinyl)-L-cysteine (ortholog); sodium arsenite (ortholog).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC102555814; uncharacterized LOC102555814; uncharacterized protein C4orf54 homolog; uncharacterized protein LOC102555814
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr82229,253,995 - 229,272,761 (+)NCBIGRCr8
mRatBN7.22226,580,582 - 226,599,354 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2226,583,481 - 226,588,835 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx2234,320,117 - 234,338,547 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.02232,219,861 - 232,238,291 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.02227,084,527 - 227,102,957 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.02243,332,705 - 243,353,227 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.02261,874,349 - 261,894,871 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera2218,735,565 - 218,756,066 (+)NCBICelera
Cytogenetic Map2q43NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


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

Genomics

Comparative Map Data
C2h4orf54
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr82229,253,995 - 229,272,761 (+)NCBIGRCr8
mRatBN7.22226,580,582 - 226,599,354 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2226,583,481 - 226,588,835 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx2234,320,117 - 234,338,547 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.02232,219,861 - 232,238,291 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.02227,084,527 - 227,102,957 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.02243,332,705 - 243,353,227 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.02261,874,349 - 261,894,871 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera2218,735,565 - 218,756,066 (+)NCBICelera
Cytogenetic Map2q43NCBI
C4orf54
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38499,636,529 - 99,657,828 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl499,636,529 - 99,657,828 (-)EnsemblGRCh38hg38GRCh38
GRCh374100,557,686 - 100,578,985 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 364100,776,708 - 100,795,766 (-)NCBINCBI36Build 36hg18NCBI36
Celera497,855,109 - 97,874,158 (-)NCBICelera
Cytogenetic Map4q23NCBI
HuRef496,296,017 - 96,313,755 (-)NCBIHuRef
CHM1_14100,534,097 - 100,551,834 (-)NCBICHM1_1
T2T-CHM13v2.04102,951,958 - 102,973,264 (-)NCBIT2T-CHM13v2.0
1110002E22Rik
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm393137,768,010 - 137,787,267 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl3137,770,813 - 137,787,267 (+)EnsemblGRCm39 Ensembl
GRCm383138,062,242 - 138,081,501 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl3138,065,052 - 138,081,506 (+)EnsemblGRCm38mm10GRCm38
MGSCv373137,727,768 - 137,733,376 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv363137,727,768 - 137,733,376 (+)NCBIMGSCv36mm8
Celera3144,476,182 - 144,481,790 (+)NCBICelera
Cytogenetic Map3G3NCBI
cM Map364.05NCBI
CUNH4orf54
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554967,933,910 - 7,938,320 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554967,933,953 - 7,949,207 (+)NCBIChiLan1.0ChiLan1.0
C3H4orf54
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2397,718,136 - 97,736,333 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1498,001,866 - 98,020,095 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0492,059,666 - 92,077,877 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.14102,720,641 - 102,738,764 (-)NCBIpanpan1.1PanPan1.1panPan2
C32H4orf54
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13221,640,025 - 21,660,433 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3221,653,326 - 21,658,740 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3220,236,722 - 20,256,604 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03221,861,173 - 21,881,070 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3221,861,178 - 21,879,937 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13221,837,738 - 21,857,681 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03221,624,587 - 21,644,470 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03218,223,742 - 18,243,624 (+)NCBIUU_Cfam_GSD_1.0
CUNH4orf54
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440530119,951,790 - 19,975,345 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365203,301,187 - 3,306,556 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365203,301,187 - 3,315,518 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
C8H4orf54
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl8120,792,258 - 120,798,930 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.18120,788,180 - 120,810,974 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.28130,011,520 - 130,026,777 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CUNH4orf54
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1747,760,318 - 47,807,654 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl747,791,139 - 47,796,529 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603726,255,387 - 26,262,335 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0

Variants

.
Variants in C2h4orf54
95 total Variants

QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2301408Kidm36Kidney mass QTL 360.002kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)2190613715226808892Rat
1598813Memor9Memory QTL 92.7exploratory behavior trait (VT:0010471)average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)2199341726234244620Rat
8693697Alc36Alcohol consumption QTL 3620.592drinking behavior trait (VT:0001422)calculated ethanol drink intake rate (CMO:0001615)2217139753236660713Rat
1298075Scl17Serum cholesterol level QTL 173.4blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)2211744537249053267Rat
1354648Bp239Blood pressure QTL 2390.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)266118463226797303Rat
2298479Eau5Experimental allergic uveoretinitis QTL 50.0021uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)2202446871237938339Rat
1354649Kidm17Kidney mass QTL 172.9kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)281754530227146641Rat
1300126Bp175Blood pressure QTL 1753.46arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2214226044247136170Rat
10755499Bp389Blood pressure QTL 3892.61arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)218960362228801039Rat
7207484Bss108Bone structure and strength QTL 1085.3femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)2211744537249053267Rat
2313073Bmd75Bone mineral density QTL 754.10.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)2215377404237938339Rat
7411555Bw132Body weight QTL 1320.001body mass (VT:0001259)body weight gain (CMO:0000420)2223389739249053267Rat
738013Alc15Alcohol consumption QTL 154.10.00022consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)2184165752229165752Rat
61398Bp50Blood pressure QTL 504.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2189599258234599258Rat
7207482Bss107Bone structure and strength QTL 1077femur strength trait (VT:0010010)femur ultimate force (CMO:0001675)2211744537249053267Rat
2317752Glom23Glomerulus QTL 233.6urine protein amount (VT:0005160)urine protein level (CMO:0000591)2193452645245889826Rat
1549836Bss2Bone structure and strength QTL 27.5femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)2211744537249053267Rat
2317885Alcrsp28Alcohol response QTL 282.10.63response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)2212828222249053267Rat
1581499Esta2Estrogen-induced thymic atrophy QTL 2thymus mass (VT:0004954)thymus wet weight (CMO:0000855)2189599258226936289Rat
1331767Hrtrt12Heart rate QTL 123.373heart pumping trait (VT:2000009)heart rate (CMO:0000002)2218414747240841241Rat
9589044Scfw1Subcutaneous fat weight QTL 15.80.001subcutaneous adipose mass (VT:1000472)abdominal subcutaneous fat pad weight (CMO:0002069)2182171407227171407Rat
8694435Bw166Body weight QTL 16614.080.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)2182171407227171407Rat
2293833Kiddil8Kidney dilation QTL 82.9kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)2219753301247136170Rat
8694383Bw158Body weight QTL 1587.690.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)2182171407227171407Rat
1598835Anxrr18Anxiety related response QTL 182.98body movement coordination trait (VT:0005424)number of rearing movements in an experimental apparatus (CMO:0001752)2200990457245990457Rat
7207490Bss111Bone structure and strength QTL 1116.4femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)2211744537249053267Rat
8693622Alc26Alcohol consumption QTL 262.40.667drinking behavior trait (VT:0001422)calculated ethanol drink intake rate (CMO:0001615)2221136523241305619Rat
2306901Bp337Blood pressure QTL 3370.01arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2164073756227146641Rat
8694194Abfw1Abdominal fat weight QTL 111.70.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)2182171407227171407Rat
61366Iddm3Insulin dependent diabetes mellitus QTL 34.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)2189599258234599258Rat
9587428Epfw6Epididymal fat weight QTL 67.470.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)2223389739249053267Rat
2293844Kiddil7Kidney dilation QTL 73.5kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)2219753301247136170Rat
1641891Alcrsp17Alcohol response QTL 17response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)2149559561249053267Rat
724534Uae6Urinary albumin excretion QTL 610urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)278665619249053267Rat


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSRNOT00000105006   ⟹   ENSRNOP00000076433
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2226,583,481 - 226,588,835 (+)Ensembl
RefSeq Acc Id: NM_001399866   ⟹   NP_001386795
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr82229,253,995 - 229,272,761 (+)NCBI
mRatBN7.22226,580,582 - 226,599,350 (+)NCBI
RefSeq Acc Id: XM_063281102   ⟹   XP_063137172
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr82229,254,631 - 229,272,761 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001386795 (Get FASTA)   NCBI Sequence Viewer  
  XP_063137172 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000076433.1
Ensembl Acc Id: ENSRNOP00000076433   ⟸   ENSRNOT00000105006
RefSeq Acc Id: NP_001386795   ⟸   NM_001399866
- UniProtKB: A0A8I5XZX9 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063137172   ⟸   XM_063281102
- Peptide Label: isoform X1
Protein Domains
DUF4585

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:7695964 AgrOrtholog
BioCyc Gene G2FUF-51083 BioCyc
Ensembl Genes ENSRNOG00000063384 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000105006.1 UniProtKB/TrEMBL
InterPro CEFIP UniProtKB/TrEMBL
  DUF4585 UniProtKB/TrEMBL
NCBI Gene LOC102555814 ENTREZGENE
PANTHER CARDIAC-ENRICHED FHL2-INTERACTING PROTEIN-RELATED UniProtKB/TrEMBL
  SI:DKEY-38L22.2 UniProtKB/TrEMBL
Pfam DUF4585 UniProtKB/TrEMBL
PhenoGen C2h4orf54 PhenoGen
RatGTEx ENSRNOG00000063384 RatGTEx
UniProt A0A8I5XZX9 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2023-09-19 C2h4orf54  similar to human chromosome 4 open reading frame 54  LOC102555814  uncharacterized LOC102555814  Symbol and Name Changed 1299863 APPROVED
2013-12-18 LOC102555814  uncharacterized LOC102555814      Symbol and Name status set to provisional 70820 PROVISIONAL