Calu (calumenin) - Rat Genome Database

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Gene: Calu (calumenin) Rattus norvegicus
Analyze
Symbol: Calu
Name: calumenin
RGD ID: 620383
Description: Enables calcium ion binding activity; enzyme binding activity; and enzyme inhibitor activity. Involved in peripheral nervous system axon regeneration. Located in endoplasmic reticulum lumen. Orthologous to human CALU (calumenin); INTERACTS WITH 1,3-dinitrobenzene; 1-naphthyl isothiocyanate; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: CBP-50; Cbp50; crocalbin; MGC124555; Rcn; reticulocalbin
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
GRCr8458,914,456 - 58,941,957 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl458,914,421 - 58,941,956 (+)EnsemblGRCr8
mRatBN7.2457,949,086 - 57,976,589 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl457,948,997 - 57,976,593 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx462,932,083 - 62,959,657 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0458,848,234 - 58,875,810 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0457,250,131 - 57,277,707 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0456,625,611 - 56,653,112 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl456,625,561 - 56,653,111 (+)Ensemblrn6Rnor6.0
Rnor_5.0456,392,772 - 56,420,273 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4456,228,617 - 56,256,118 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera453,057,097 - 53,084,601 (+)NCBICelera
RGSC_v3.1456,484,215 - 56,512,241 (+)NCBI
Cytogenetic Map4q22NCBI
JBrowse:




Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(1->4)-beta-D-glucan  (ISO)
1,2-dimethylhydrazine  (ISO)
1,3-dinitrobenzene  (EXP)
1,4-dithiothreitol  (ISO)
1-naphthyl isothiocyanate  (EXP)
17beta-estradiol  (ISO)
17beta-hydroxy-5alpha-androstan-3-one  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,6-dinitrotoluene  (EXP)
4,4'-diaminodiphenylmethane  (ISO)
6-propyl-2-thiouracil  (EXP)
acrylamide  (EXP)
aldehydo-D-glucose  (ISO)
all-trans-retinoic acid  (ISO)
ammonium chloride  (EXP)
aristolochic acid A  (ISO)
Aroclor 1254  (ISO)
atrazine  (ISO)
Azaspiracid  (ISO)
benzatropine  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
bisphenol A  (EXP,ISO)
bisphenol AF  (ISO)
Bisphenol B  (ISO)
bisphenol F  (ISO)
bleomycin A2  (EXP)
Bromadiolone  (EXP)
cadmium dichloride  (EXP,ISO)
caffeine  (ISO)
carbon nanotube  (ISO)
CGP 52608  (ISO)
chloroform  (EXP)
chloropicrin  (ISO)
clozapine  (ISO)
cobalt dichloride  (ISO)
coumestrol  (ISO)
CU-O LINKAGE  (ISO)
cyclosporin A  (ISO)
D-glucose  (ISO)
deguelin  (ISO)
dexamethasone  (EXP)
dimethylarsinic acid  (EXP)
dopamine  (EXP)
doxorubicin  (ISO)
elemental selenium  (ISO)
Enterolactone  (ISO)
enzyme inhibitor  (ISO)
erythromycin estolate  (EXP)
ethanol  (ISO)
ethyl methanesulfonate  (ISO)
fenoldopam  (EXP)
folic acid  (ISO)
formaldehyde  (ISO)
FR900359  (ISO)
fragrance  (ISO)
furfural  (ISO)
glafenine  (EXP)
glucose  (ISO)
glyphosate  (ISO)
hyaluronic acid  (EXP)
hydrogen peroxide  (EXP,ISO)
Ibutilide  (EXP)
inulin  (ISO)
ivermectin  (ISO)
L-1,4-dithiothreitol  (ISO)
lead diacetate  (ISO)
methimazole  (EXP)
methyl methanesulfonate  (ISO)
methylmercury chloride  (ISO)
nickel atom  (ISO)
nickel subsulfide  (EXP)
nitrates  (ISO)
ozone  (ISO)
paracetamol  (EXP,ISO)
PCB138  (EXP)
perfluorooctane-1-sulfonic acid  (ISO)
perfluorooctanoic acid  (ISO)
phenol  (ISO)
potassium dichromate  (ISO)
resveratrol  (ISO)
selenium atom  (ISO)
silver atom  (ISO)
silver(0)  (ISO)
sodium arsenite  (ISO)
sodium chloride  (ISO)
sodium fluoride  (ISO)
temozolomide  (ISO)
tert-butyl hydroperoxide  (ISO)
testosterone  (ISO)
tetrachloromethane  (EXP,ISO)
tetracycline  (EXP)
tetrahydropalmatine  (ISO)
thapsigargin  (EXP,ISO)
theophylline  (EXP)
thioacetamide  (ISO)
thiram  (ISO)
trichostatin A  (ISO)
triphenyl phosphate  (ISO)
tunicamycin  (EXP,ISO)
valproic acid  (ISO)
vinclozolin  (EXP)
vincristine  (ISO)
vitamin E  (ISO)
warfarin  (EXP,ISO)
yohimbine  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Inflammation, adenoma and cancer: objective classification of colon biopsy specimens with gene expression signature. Galamb O, etal., Dis Markers. 2008;25(1):1-16.
2. 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.
3. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
4. Proteomics of the injured rat sciatic nerve reveals protein expression dynamics during regeneration. Jimenez CR, etal., Mol Cell Proteomics. 2005 Feb;4(2):120-32. Epub 2004 Oct 25.
5. Characterization of bromadiolone resistance in a danish strain of Norway rats, Rattus norvegicus, by hepatic gene expression profiling of genes involved in vitamin K-dependent gamma-carboxylation. Markussen MD, etal., J Biochem Mol Toxicol. 2007;21(6):373-81.
6. Exploring the Immune Infiltration Landscape and M2 Macrophage-Related Biomarkers of Proliferative Diabetic Retinopathy. Meng Z, etal., Front Endocrinol (Lausanne). 2022 May 27;13:841813. doi: 10.3389/fendo.2022.841813. eCollection 2022.
7. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
8. Reticulocalbin, a novel endoplasmic reticulum resident Ca(2+)-binding protein with multiple EF-hand motifs and a carboxyl-terminal HDEL sequence. Ozawa M and Muramatsu T, J Biol Chem 1993 Jan 5;268(1):699-705.
9. GOA pipeline RGD automated data pipeline
10. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
11. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
12. The inhibitory effect of calumenin on the vitamin K-dependent gamma-carboxylation system. Characterization of the system in normal and warfarin-resistant rats. Wajih N, etal., J Biol Chem. 2004 Jun 11;279(24):25276-83. Epub 2004 Apr 9.
Additional References at PubMed
PMID:9218460   PMID:9806833   PMID:10094503   PMID:12477932   PMID:15632090   PMID:18562801   PMID:19946888   PMID:24012670   PMID:28399139   PMID:29665007   PMID:35352799  


Genomics

Comparative Map Data
Calu
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8458,914,456 - 58,941,957 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl458,914,421 - 58,941,956 (+)EnsemblGRCr8
mRatBN7.2457,949,086 - 57,976,589 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl457,948,997 - 57,976,593 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx462,932,083 - 62,959,657 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0458,848,234 - 58,875,810 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0457,250,131 - 57,277,707 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0456,625,611 - 56,653,112 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl456,625,561 - 56,653,111 (+)Ensemblrn6Rnor6.0
Rnor_5.0456,392,772 - 56,420,273 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4456,228,617 - 56,256,118 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera453,057,097 - 53,084,601 (+)NCBICelera
RGSC_v3.1456,484,215 - 56,512,241 (+)NCBI
Cytogenetic Map4q22NCBI
CALU
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh387128,739,359 - 128,773,400 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl7128,739,292 - 128,773,400 (+)Ensemblhg38GRCh38
GRCh377128,379,413 - 128,413,454 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 367128,166,672 - 128,198,764 (+)NCBIBuild 36Build 36hg18NCBI36
Build 347127,973,386 - 128,005,478NCBI
Celera7123,175,101 - 123,207,285 (+)NCBICelera
Cytogenetic Map7q32.1NCBI
HuRef7122,740,343 - 122,774,461 (+)NCBIHuRef
CHM1_17128,312,626 - 128,346,717 (+)NCBICHM1_1
T2T-CHM13v2.07130,051,503 - 130,085,553 (+)NCBIT2T-CHM13v2.0
CRA_TCAGchr7v27127,762,331 - 127,796,461 (+)NCBI
Calu
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39629,348,105 - 29,376,674 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl629,348,068 - 29,377,109 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm38629,348,106 - 29,376,675 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl629,348,069 - 29,377,110 (+)Ensemblmm10GRCm38
MGSCv37629,298,119 - 29,326,675 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36629,298,155 - 29,326,678 (+)NCBIMGSCv36mm8
Celera629,355,300 - 29,383,863 (+)NCBICelera
Cytogenetic Map6A3.3NCBI
cM Map612.36NCBI
Calu
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554799,541,568 - 9,572,266 (+)Ensembl
ChiLan1.0NW_0049554799,541,574 - 9,572,189 (+)NCBIChiLan1.0ChiLan1.0
CALU
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v26165,543,477 - 165,575,634 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1717,553,664 - 17,585,880 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v07120,691,092 - 120,723,303 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.17133,215,235 - 133,247,541 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl7133,223,269 - 133,247,167 (+)EnsemblpanPan2panpan1.1
CALU
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1147,869,946 - 7,899,302 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl147,872,076 - 7,925,078 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha147,556,743 - 7,586,116 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0147,635,858 - 7,665,254 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl147,635,858 - 7,671,959 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1147,840,807 - 7,870,176 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0147,582,998 - 7,612,128 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0147,728,236 - 7,757,618 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Calu
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440511854,542,168 - 54,574,792 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647915,665,946 - 15,698,560 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_00493647915,665,979 - 15,697,016 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CALU
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1819,841,719 - 19,875,786 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.11819,841,718 - 19,875,804 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21820,911,135 - 20,945,220 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CALU
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12197,338,875 - 97,370,947 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2197,338,913 - 97,373,156 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_0236660426,032,895 - 6,065,516 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Calu
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247837,417,505 - 7,448,711 (-)NCBIHetGla 1.0HetGla 1.0hetGla2

Variants

.
Variants in Calu
91 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:1122
Count of miRNA genes:281
Interacting mature miRNAs:388
Transcripts:ENSRNOT00000008356, ENSRNOT00000008972
Prediction methods:Microtar, Miranda, 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
2303585Bw86Body weight QTL 864body mass (VT:0001259)body weight (CMO:0000012)41564430960644309Rat
5685012Bmd87Bone mineral density QTL 875.1tibia mineral mass (VT:1000283)bone mineral content (CMO:0001554)43511329080113290Rat
1358352Srcrt3Stress Responsive Cort QTL 32.29blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)439431983123203361Rat
61445Strs3Sensitivity to stroke QTL 33cerebrum integrity trait (VT:0010549)post-insult time to onset of cerebrovascular lesion (CMO:0002343)44140057786400577Rat
6893678Bw108Body weight QTL 1082.60.006body mass (VT:0001259)body weight (CMO:0000012)44442502489425024Rat
5685009Bmd86Bone mineral density QTL 863.7tibia mineral mass (VT:1000283)bone mineral density (CMO:0001226)457613242102613242Rat
10755501Bp390Blood pressure QTL 3902.5arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)427730518170099664Rat
1331807Rf31Renal function QTL 312.988urine potassium amount (VT:0010539)urine potassium level (CMO:0000128)44049044275726188Rat
634311Sach7Saccharin preference QTL 7taste sensitivity trait (VT:0001986)saccharin intake volume to total fluid intake volume ratio (CMO:0001601)45807987582597589Rat
1358363Sradr3Stress Responsive Adrenal Weight QTL 36.19adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)458817672103817672Rat
61330Eau1Experimental allergic uveoretinitis QTL 10.0003uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)426234499134199155Rat
631261Tcas3Tongue tumor susceptibility QTL 36.88tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)41170660492690519Rat
61336Bp21Blood pressure QTL 214.6arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)45808014680212111Rat
2313401Anxrr27Anxiety related response QTL 27aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)41890069763900697Rat
8655961Kidm43Kidney mass QTL 4318kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)43726957782269577Rat
1354612Foco1Food consumption QTL 18.87eating behavior trait (VT:0001431)food intake rate (CMO:0000427)445429897149763204Rat
6909128Pancm4Pancreatic morphology QTL 411.35pancreas mass (VT:0010144)pancreas wet weight (CMO:0000626)427862204126119996Rat
2303168Bp330Blood pressure QTL 3304.250.017arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)45889999148002343Rat
61475Aia2Adjuvant induced arthritis QTL 25.8joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)44047145375939996Rat
8694439Bw168Body weight QTL 1689.570.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)44140060386400603Rat
61412Pia2Pristane induced arthritis QTL 23.9joint integrity trait (VT:0010548)post-insult time to onset of experimental arthritis (CMO:0001450)42228845363245191Rat
8552807Vie4Viral induced encephalitis QTL 47.3brain integrity trait (VT:0010579)encephalitis incidence/prevalence measurement (CMO:0002361)41890069763900697Rat
8655906Rf60Renal function QTL 603.8blood creatinine amount (VT:0005328)creatinine clearance (CMO:0000765)43044896182336920Rat
1576305Emca6Estrogen-induced mammary cancer QTL 65.8mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)445429709157555683Rat
7387227Uae40Urinary albumin excretion QTL 402.90.0052urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)41891315163913151Rat
6909122Insul22Insulin level QTL 224.63blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)42786220462997402Rat
1558651Swd3Spike wave discharge measurement QTL 34.620.000024brain electrophysiology trait (VT:0010557)brain spike-and-wave discharge frequency (CMO:0001742)44140057786400577Rat
1358203Stl19Serum triglyceride level QTL 192.80.002blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)42192515166925151Rat
1354660Salc1Saline consumption QTL 111.26drinking behavior trait (VT:0001422)saline drink intake rate (CMO:0001627)445429897149763204Rat
1641833Alc21Alcohol consumption QTL 218.60.0001drinking behavior trait (VT:0001422)ethanol drink intake rate (CMO:0001407)457664252127749483Rat
70192BpQTLcluster5Blood pressure QTL cluster 54.183arterial blood pressure trait (VT:2000000)absolute change in mean arterial blood pressure (CMO:0000533)4163900697Rat
1298082Stresp4Stress response QTL 4blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)451085655113588029Rat
631546Bp86Blood pressure QTL 863.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)45807987592690793Rat
1300139Hrtrt6Heart rate QTL 62.85heart pumping trait (VT:2000009)heart rate (CMO:0000002)440490442117737312Rat
70200Alc18Alcohol consumption QTL 189.2drinking behavior trait (VT:0001422)ethanol intake volume to total fluid intake volume ratio (CMO:0001591)457613339151163960Rat
12798520Anxrr55Anxiety related response QTL 554.450.01locomotor behavior trait (VT:0001392)number of rearing movements with lid-pushing in an experimental apparatus (CMO:0002715)433538597116185060Rat
4889969Bss96Bone structure and strength QTL 964.9tibia size trait (VT:0100001)tibia cortical bone volume (CMO:0001725)457613242102613242Rat
2316958Gluco58Glucose level QTL 5810blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)412212457182430611Rat
4889972Bss97Bone structure and strength QTL 975.6tibia size trait (VT:0100001)tibia total bone volume (CMO:0001724)457613242102613242Rat

Markers in Region
RH127678  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2457,976,231 - 57,976,442 (+)MAPPERmRatBN7.2
Rnor_6.0456,652,755 - 56,652,965NCBIRnor6.0
Rnor_5.0456,419,916 - 56,420,126UniSTSRnor5.0
RGSC_v3.4456,255,761 - 56,255,971UniSTSRGSC3.4
Celera453,084,244 - 53,084,454UniSTS
RH 3.4 Map4307.2UniSTS
Cytogenetic Map4q22UniSTS
MARC_11525-11526:1001518036:1  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr8458,931,710 - 58,932,486 (+)Marker Load Pipeline
mRatBN7.2457,966,342 - 57,967,118 (+)MAPPERmRatBN7.2
Rnor_6.0456,642,866 - 56,643,641NCBIRnor6.0
Rnor_5.0456,410,027 - 56,410,802UniSTSRnor5.0
RGSC_v3.4456,245,872 - 56,246,647UniSTSRGSC3.4
Celera453,074,355 - 53,075,130UniSTS
Cytogenetic Map4q22UniSTS


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: ENSRNOT00000008356   ⟹   ENSRNOP00000008356
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl458,914,421 - 58,941,956 (+)Ensembl
mRatBN7.2 Ensembl457,949,047 - 57,976,593 (+)Ensembl
Rnor_6.0 Ensembl456,625,561 - 56,653,105 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000008972   ⟹   ENSRNOP00000008972
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl458,914,434 - 58,941,956 (+)Ensembl
mRatBN7.2 Ensembl457,949,059 - 57,976,593 (+)Ensembl
Rnor_6.0 Ensembl456,625,611 - 56,653,111 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000090808   ⟹   ENSRNOP00000073213
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl458,914,421 - 58,941,956 (+)Ensembl
mRatBN7.2 Ensembl457,949,061 - 57,976,593 (+)Ensembl
Rnor_6.0 Ensembl456,625,606 - 56,653,111 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000117112   ⟹   ENSRNOP00000088242
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl458,914,421 - 58,940,719 (+)Ensembl
mRatBN7.2 Ensembl457,948,997 - 57,974,350 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000125575   ⟹   ENSRNOP00000107504
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl458,914,421 - 58,941,956 (+)Ensembl
RefSeq Acc Id: NM_001033898   ⟹   NP_001029070
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8458,914,456 - 58,941,957 (+)NCBI
mRatBN7.2457,949,086 - 57,976,589 (+)NCBI
Rnor_6.0456,625,611 - 56,653,112 (+)NCBI
Rnor_5.0456,392,772 - 56,420,273 (+)NCBI
RGSC_v3.4456,228,617 - 56,256,118 (+)RGD
Celera453,057,097 - 53,084,601 (+)RGD
Sequence:
RefSeq Acc Id: NM_022535   ⟹   NP_071980
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8458,914,456 - 58,941,957 (+)NCBI
mRatBN7.2457,949,086 - 57,976,589 (+)NCBI
Rnor_6.0456,625,611 - 56,653,112 (+)NCBI
Rnor_5.0456,392,772 - 56,420,273 (+)NCBI
RGSC_v3.4456,228,617 - 56,256,118 (+)RGD
Celera453,057,097 - 53,084,601 (+)RGD
Sequence:
RefSeq Acc Id: NP_071980   ⟸   NM_022535
- Peptide Label: isoform a precursor
- UniProtKB: G3V6S3 (UniProtKB/TrEMBL),   A6IEC5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001029070   ⟸   NM_001033898
- Peptide Label: isoform b precursor
- UniProtKB: Q3MID6 (UniProtKB/TrEMBL),   A6IEC6 (UniProtKB/TrEMBL),   F7ETZ4 (UniProtKB/TrEMBL),   A0A0G2K4X7 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000008972   ⟸   ENSRNOT00000008972
Ensembl Acc Id: ENSRNOP00000008356   ⟸   ENSRNOT00000008356
Ensembl Acc Id: ENSRNOP00000073213   ⟸   ENSRNOT00000090808
Ensembl Acc Id: ENSRNOP00000088242   ⟸   ENSRNOT00000117112
Ensembl Acc Id: ENSRNOP00000107504   ⟸   ENSRNOT00000125575
Protein Domains
EF-hand

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-O35783-F1-model_v2 AlphaFold O35783 1-315 view protein structure

Transcriptome

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

Promoters
RGD ID:13692923
Promoter ID:EPDNEW_R3447
Type:initiation region
Name:Calu_1
Description:calumenin
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_6.0456,625,589 - 56,625,649EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:620383 AgrOrtholog
BioCyc Gene G2FUF-45398 BioCyc
Ensembl Genes ENSRNOG00000006197 Ensembl, ENTREZGENE
Ensembl Transcript ENSRNOT00000008356 ENTREZGENE
  ENSRNOT00000008972 ENTREZGENE
Gene3D-CATH EF-hand UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7933832 IMAGE-MGC_LOAD
InterPro EF-hand-dom_pair UniProtKB/Swiss-Prot
  EF_Hand_1_Ca_BS UniProtKB/Swiss-Prot
  EF_hand_dom UniProtKB/Swiss-Prot
MGC_CLONE MGC:124555 IMAGE-MGC_LOAD
NCBI Gene 64366 ENTREZGENE
PANTHER CALUMENIN UniProtKB/Swiss-Prot
  RETICULOCALBIN UniProtKB/Swiss-Prot
Pfam EF-hand_5 UniProtKB/Swiss-Prot
  EF-hand_7 UniProtKB/Swiss-Prot
  EF-hand_8 UniProtKB/Swiss-Prot
PhenoGen Calu PhenoGen
PROSITE EF_HAND_1 UniProtKB/Swiss-Prot
  EF_HAND_2 UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000006197 RatGTEx
SMART EFh UniProtKB/Swiss-Prot
Superfamily-SCOP SSF47473 UniProtKB/Swiss-Prot
UniProt A0A0G2K4X7 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6A8Z7_RAT UniProtKB/TrEMBL
  A6IEC5 ENTREZGENE, UniProtKB/TrEMBL
  A6IEC6 ENTREZGENE, UniProtKB/TrEMBL
  CALU_RAT UniProtKB/Swiss-Prot
  F7ETZ4 ENTREZGENE, UniProtKB/TrEMBL
  G3V6S3 ENTREZGENE, UniProtKB/TrEMBL
  O35783 ENTREZGENE
  Q3MID6 ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-06-27     Calu  calumenin  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-06 Calu  calumenin  MGC124555  calumenin  Data merged from RGD:1595849 737654 APPROVED
2006-11-20 MGC124555  calumenin      Symbol and Name status set to provisional 70820 PROVISIONAL
2005-01-20 Calu  calumenin  Rcn  reticulocalbin  Symbol and Name updated 1299863 APPROVED
2002-08-07 Rcn  reticulocalbin      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_domains contains six repeats of an EF hand Ca2+ binding domain 633877