Clgn (calmegin) - Rat Genome Database

Send us a Message



Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Gene: Clgn (calmegin) Rattus norvegicus
Analyze
Symbol: Clgn
Name: calmegin
RGD ID: 1592643
Description: Predicted to enable calcium ion binding activity and protein folding chaperone. Predicted to be involved in ERAD pathway and protein folding. Predicted to act upstream of or within binding activity of sperm to zona pellucida and protein-containing complex assembly. Predicted to be located in endoplasmic reticulum. Predicted to be active in endoplasmic reticulum membrane. Orthologous to human CLGN (calmegin); INTERACTS WITH 17beta-estradiol; 2,3,7,8-Tetrachlorodibenzofuran; 3,7-dihydropurine-6-thione.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC685504; similar to Calmegin precursor (MEG 1 antigen) (Calnexin-T) (A2/6)
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
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
GRCr81941,601,568 - 41,633,207 (-)NCBIGRCr8
mRatBN7.21924,695,140 - 24,728,542 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1924,696,875 - 24,728,758 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1931,518,147 - 31,549,774 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01932,172,540 - 32,204,171 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01934,388,510 - 34,420,107 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01924,545,257 - 24,578,527 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1924,545,318 - 24,576,798 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01935,523,686 - 35,556,991 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41926,404,126 - 26,436,081 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1924,238,158 - 24,269,769 (-)NCBICelera
Cytogenetic Map19q11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View
Dwarfism  (ISO)

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,2-dimethylhydrazine  (ISO)
17beta-estradiol  (EXP,ISO)
17beta-hydroxy-5alpha-androstan-3-one  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2,3,7,8-Tetrachlorodibenzofuran  (EXP)
2,3-dimethoxynaphthalene-1,4-dione  (ISO)
2-palmitoylglycerol  (ISO)
3,4-dichloroaniline  (ISO)
3,7-dihydropurine-6-thione  (EXP)
6-propyl-2-thiouracil  (EXP)
6alpha-methylprednisolone  (ISO)
8-Br-cAMP  (ISO)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (ISO)
ampicillin  (ISO)
antimony(0)  (ISO)
arsenous acid  (ISO)
azathioprine  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
bicalutamide  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
butanal  (ISO)
cadmium atom  (ISO)
cadmium dichloride  (ISO)
calcitriol  (ISO)
chromium atom  (ISO)
cisplatin  (ISO)
clorgyline  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) sulfate  (ISO)
Cuprizon  (EXP)
cyclosporin A  (ISO)
dexamethasone  (ISO)
diarsenic trioxide  (ISO)
dicrotophos  (ISO)
dipotassium bis[mu-tartrato(4-)]diantimonate(2-) trihydrate  (ISO)
disodium selenite  (ISO)
diuron  (ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
entinostat  (ISO)
ethanol  (ISO)
ethyl methanesulfonate  (ISO)
folic acid  (ISO)
formaldehyde  (ISO)
irinotecan  (ISO)
lead diacetate  (ISO)
leflunomide  (ISO)
lucanthone  (ISO)
mercaptopurine  (EXP)
mercury atom  (ISO)
mercury(0)  (ISO)
methotrexate  (ISO)
methyl methanesulfonate  (ISO)
methylmercury chloride  (ISO)
mitomycin C  (ISO)
N-methyl-4-phenylpyridinium  (ISO)
panobinostat  (ISO)
paracetamol  (EXP,ISO)
perfluorononanoic acid  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
perfluorooctanoic acid  (ISO)
phenylmercury acetate  (ISO)
piroxicam  (ISO)
potassium chromate  (ISO)
potassium dichromate  (ISO)
prednisolone  (ISO)
progesterone  (ISO)
purine-6-thiol  (EXP)
quercetin  (ISO)
quinolin-8-ol  (ISO)
resveratrol  (EXP)
SB 431542  (ISO)
silicon dioxide  (ISO)
sodium arsenite  (ISO)
sodium aurothiomalate  (ISO)
sulforaphane  (ISO)
temozolomide  (ISO)
testosterone  (EXP)
titanium dioxide  (ISO)
trichloroethene  (EXP)
trichostatin A  (ISO)
trimellitic anhydride  (ISO)
valproic acid  (ISO)
vinclozolin  (EXP)
vorinostat  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:8126001   PMID:8188695   PMID:9177349   PMID:9780330   PMID:10495883   PMID:11784061   PMID:12477932   PMID:22357757   PMID:22621904   PMID:31865789  


Genomics

Comparative Map Data
Clgn
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81941,601,568 - 41,633,207 (-)NCBIGRCr8
mRatBN7.21924,695,140 - 24,728,542 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1924,696,875 - 24,728,758 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1931,518,147 - 31,549,774 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01932,172,540 - 32,204,171 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01934,388,510 - 34,420,107 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01924,545,257 - 24,578,527 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1924,545,318 - 24,576,798 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01935,523,686 - 35,556,991 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41926,404,126 - 26,436,081 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1924,238,158 - 24,269,769 (-)NCBICelera
Cytogenetic Map19q11NCBI
CLGN
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh384140,388,453 - 140,427,648 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl4140,388,453 - 140,427,661 (-)EnsemblGRCh38hg38GRCh38
GRCh374141,309,607 - 141,348,802 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 364141,529,057 - 141,568,232 (-)NCBINCBI36Build 36hg18NCBI36
Build 344141,667,213 - 141,706,387NCBI
Celera4138,639,605 - 138,678,818 (-)NCBICelera
Cytogenetic Map4q31.1NCBI
HuRef4137,040,252 - 137,079,290 (-)NCBIHuRef
CHM1_14141,286,961 - 141,326,164 (-)NCBICHM1_1
T2T-CHM13v2.04143,708,226 - 143,747,412 (-)NCBIT2T-CHM13v2.0
Clgn
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39884,116,454 - 84,155,181 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl884,116,496 - 84,155,181 (+)EnsemblGRCm39 Ensembl
GRCm38883,389,790 - 83,428,552 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl883,389,867 - 83,428,552 (+)EnsemblGRCm38mm10GRCm38
MGSCv37885,913,790 - 85,950,728 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36886,279,996 - 86,316,934 (+)NCBIMGSCv36mm8
Celera887,681,299 - 87,717,622 (+)NCBICelera
Cytogenetic Map8C2NCBI
cM Map839.97NCBI
Clgn
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554283,361,635 - 3,402,075 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554283,359,231 - 3,406,221 (+)NCBIChiLan1.0ChiLan1.0
CLGN
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v23138,265,850 - 138,304,872 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan14138,652,025 - 138,697,256 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v04132,756,193 - 132,794,805 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.14144,061,617 - 144,099,419 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl4144,060,656 - 144,099,419 (-)Ensemblpanpan1.1panPan2
CLGN
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1192,397,122 - 2,445,878 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl192,397,125 - 2,455,448 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha192,661,232 - 2,692,491 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0192,461,327 - 2,510,319 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl192,461,330 - 2,519,887 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1192,415,940 - 2,447,199 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0192,777,714 - 2,808,954 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0193,133,450 - 3,164,709 (+)NCBIUU_Cfam_GSD_1.0
Clgn
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440530149,921,643 - 49,962,534 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365357,358,939 - 7,399,538 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365357,358,960 - 7,399,535 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CLGN
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl886,621,178 - 86,675,795 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1886,621,120 - 86,674,994 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2892,112,922 - 92,166,804 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CLGN
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1787,342,185 - 87,375,051 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl787,342,718 - 87,374,406 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603766,867,639 - 66,900,089 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Clgn
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462500630,037 - 88,167 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462500628,014 - 88,801 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Clgn
213 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:134
Count of miRNA genes:115
Interacting mature miRNAs:120
Transcripts:ENSRNOT00000005071
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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1549847Bss8Bone structure and strength QTL 84lumbar vertebra strength trait (VT:0010574)vertebra ultimate force (CMO:0001678)19131963836Rat
61447Tcas1Tongue tumor susceptibility QTL 16.08tongue integrity trait (VT:0010553)squamous cell carcinoma of the tongue maximum tumor diameter (CMO:0001875)19231612147316121Rat
631681Cm12Cardiac mass QTL 123.330.00053heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)19128982497Rat
9590298Uminl5Urine mineral level QTL 53.590.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)19136824771Rat
1331737Uae29Urinary albumin excretion QTL 295.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19409615555283277Rat
2298478Eau8Experimental allergic uveoretinitis QTL 80.0163uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)191715443357337602Rat
1578764Stresp19Stress response QTL 193.60.001blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)191563020157337602Rat
1558656Prcs1Prostate cancer susceptibility QTL 15prostate integrity trait (VT:0010571)percentage of study population developing ventral prostate tumorous lesions during a period of time (CMO:0000943)191511459834521833Rat
9590090Insglur8Insulin/glucose ratio QTL 810.810.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)19136824771Rat
1331788Rf45Renal function QTL 452.818kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)191560502346559041Rat
724566Uae12Urinary albumin excretion QTL 125urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19218792756457239Rat
724565Tcas5Tongue tumor susceptibility QTL 510.04tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)19997775339654489Rat
61407Scl12Serum cholesterol level QTL 120.001blood HDL cholesterol amount (VT:0000184)serum high density lipoprotein cholesterol level (CMO:0000361)191392640130303727Rat
8552935Pigfal10Plasma insulin-like growth factor 1 level QTL 105.7blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)19136824771Rat
61350Bp32Blood pressure QTL 320.012arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)192048357557337602Rat
7411549Bw130Body weight QTL 13050.001body mass (VT:0001259)body weight gain (CMO:0000420)191545586057337602Rat
10054132Srcrt9Stress Responsive Cort QTL 92.870.0017blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)19127355345Rat
724518Uae19Urinary albumin excretion QTL 195.5urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)19745724942983518Rat
8694186Bw152Body weight QTL 1523.340.001body mass (VT:0001259)body weight gain (CMO:0000420)1956937445569374Rat
61423Cia14Collagen induced arthritis QTL 143joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)191082797043544039Rat
631678Cm9Cardiac mass QTL 94.270.0001aorta mass (VT:0002845)aorta weight (CMO:0000076)19128982497Rat
9590250Scort11Serum corticosterone level QTL 1123.450.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)19136824771Rat
2317848Alcrsp21Alcohol response QTL 211.8999999761581420.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)19320477748204777Rat
9589102Slep13Serum leptin concentration QTL 134.630.001blood leptin amount (VT:0005667)plasma leptin level (CMO:0000781)1956937445569374Rat
7247442Uae39Urinary albumin excretion QTL 39urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)19218792746708701Rat


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
nervous system
renal system
reproductive system
respiratory system
9 9 19 113 75 74 43 24 43 6 158 63 93 36 59 31

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001109472 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001434600 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001434601 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001434602 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001434603 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001434604 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001434605 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006255298 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006255299 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017601353 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017601354 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017601355 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039097980 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039097981 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039097982 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063278275 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063278276 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC102976 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC085332 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473972 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAXUCZ010000019 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSRNOT00000005071   ⟹   ENSRNOP00000005071
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1924,696,875 - 24,728,486 (-)Ensembl
Rnor_6.0 Ensembl1924,545,318 - 24,576,798 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000103637   ⟹   ENSRNOP00000093435
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1924,696,875 - 24,728,758 (-)Ensembl
RefSeq Acc Id: NM_001109472   ⟹   NP_001102942
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81941,601,568 - 41,633,168 (-)NCBI
mRatBN7.21924,696,875 - 24,728,486 (-)NCBI
Rnor_6.01924,545,318 - 24,576,798 (+)NCBI
Rnor_5.01935,523,686 - 35,556,991 (+)NCBI
RGSC_v3.41926,404,126 - 26,436,081 (-)RGD
Celera1924,238,158 - 24,269,769 (-)RGD
Sequence:
RefSeq Acc Id: XM_006255298   ⟹   XP_006255360
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81941,601,570 - 41,633,207 (-)NCBI
mRatBN7.21924,695,146 - 24,728,542 (-)NCBI
Rnor_6.01924,545,257 - 24,578,527 (+)NCBI
Rnor_5.01935,523,686 - 35,556,991 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006255299   ⟹   XP_006255361
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81941,601,570 - 41,632,689 (-)NCBI
mRatBN7.21924,695,146 - 24,727,864 (-)NCBI
Rnor_6.01924,545,931 - 24,578,527 (+)NCBI
Rnor_5.01935,523,686 - 35,556,991 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017601355   ⟹   XP_017456844
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81941,601,570 - 41,626,711 (-)NCBI
mRatBN7.21924,695,146 - 24,722,036 (-)NCBI
Rnor_6.01924,551,681 - 24,578,527 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039097980   ⟹   XP_038953908
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81941,601,570 - 41,633,207 (-)NCBI
mRatBN7.21924,695,696 - 24,728,542 (-)NCBI
RefSeq Acc Id: XM_039097981   ⟹   XP_038953909
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81941,601,570 - 41,626,763 (-)NCBI
mRatBN7.21924,695,696 - 24,722,081 (-)NCBI
RefSeq Acc Id: XM_039097982   ⟹   XP_038953910
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81941,601,570 - 41,633,207 (-)NCBI
mRatBN7.21924,695,146 - 24,728,534 (-)NCBI
RefSeq Acc Id: XM_063278275   ⟹   XP_063134345
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81941,601,570 - 41,633,195 (-)NCBI
RefSeq Acc Id: XM_063278276   ⟹   XP_063134346
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81941,601,570 - 41,632,683 (-)NCBI
RefSeq Acc Id: NP_001102942   ⟸   NM_001109472
- Peptide Label: precursor
- UniProtKB: A6IYF2 (UniProtKB/TrEMBL),   A0A8I6GKA5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006255360   ⟸   XM_006255298
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006255361   ⟸   XM_006255299
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_017456844   ⟸   XM_017601355
- Peptide Label: isoform X3
- UniProtKB: A0A8I6GKA5 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000005071   ⟸   ENSRNOT00000005071
RefSeq Acc Id: XP_038953910   ⟸   XM_039097982
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038953908   ⟸   XM_039097980
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038953909   ⟸   XM_039097981
- Peptide Label: isoform X2
- UniProtKB: A6IYF2 (UniProtKB/TrEMBL),   A0A8I6GKA5 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSRNOP00000093435   ⟸   ENSRNOT00000103637
RefSeq Acc Id: XP_063134345   ⟸   XM_063278275
- Peptide Label: isoform X1
RefSeq Acc Id: XP_063134346   ⟸   XM_063278276
- Peptide Label: isoform X1

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZFS2-F1-model_v2 AlphaFold D3ZFS2 1-611 view protein structure

Transcriptome

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

Promoters
RGD ID:13700998
Promoter ID:EPDNEW_R11521
Type:initiation region
Name:Clgn_1
Description:calmegin
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_6.01924,545,304 - 24,545,364EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1592643 AgrOrtholog
BioCyc Gene G2FUF-6008 BioCyc
Ensembl Genes ENSRNOG00000003755 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000005071.6 UniProtKB/TrEMBL
  ENSRNOT00000103637.1 UniProtKB/TrEMBL
Gene3D-CATH 2.10.250.10 UniProtKB/TrEMBL
  2.60.120.200 UniProtKB/TrEMBL
InterPro Calret/calnex UniProtKB/TrEMBL
  Calret/calnex_CS UniProtKB/TrEMBL
  Calreticulin/calnexin_P UniProtKB/TrEMBL
  ConA-like_subgrp UniProtKB/TrEMBL
KEGG Report rno:685504 UniProtKB/TrEMBL
NCBI Gene 685504 ENTREZGENE
PANTHER CALMEGIN UniProtKB/TrEMBL
  Calret/calnex UniProtKB/TrEMBL
Pfam Calreticulin UniProtKB/TrEMBL
PhenoGen Clgn PhenoGen
PRINTS CALRETICULIN UniProtKB/TrEMBL
PROSITE CALRETICULIN_1 UniProtKB/TrEMBL
  CALRETICULIN_2 UniProtKB/TrEMBL
  CALRETICULIN_REPEAT UniProtKB/TrEMBL
RatGTEx ENSRNOG00000003755 RatGTEx
Superfamily-SCOP Calret_calnex_P UniProtKB/TrEMBL
  ConA_like_lec_gl UniProtKB/TrEMBL
UniProt A0A8I6GKA5 ENTREZGENE, UniProtKB/TrEMBL
  A6IYF2 ENTREZGENE, UniProtKB/TrEMBL
  D3ZFS2 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-03-05 Clgn  calmegin  LOC685504  similar to Calmegin precursor (MEG 1 antigen) (Calnexin-T) (A2/6)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-01-09 LOC685504  similar to Calmegin precursor (MEG 1 antigen) (Calnexin-T) (A2/6)  LOC684301  similar to Calmegin precursor (MEG 1 antigen) (Calnexin-T) (A2/6)  Data merged from RGD:1591510 1643240 APPROVED
2006-11-20 LOC685504  similar to Calmegin precursor (MEG 1 antigen) (Calnexin-T) (A2/6)      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-11-20 LOC684301  similar to Calmegin precursor (MEG 1 antigen) (Calnexin-T) (A2/6)      Symbol and Name status set to provisional 70820 PROVISIONAL