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 and response to organic cyclic compound. 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 Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2457,949,086 - 57,976,589 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl457,948,997 - 57,976,593 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx462,932,083 - 62,959,657 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0458,848,234 - 58,875,810 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0457,250,131 - 57,277,707 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0456,625,611 - 56,653,112 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl456,625,561 - 56,653,111 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0456,392,772 - 56,420,273 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4456,228,617 - 56,256,118 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1456,484,215 - 56,512,241 (+)NCBI
Celera453,057,097 - 53,084,601 (+)NCBICelera
Cytogenetic Map4q22NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


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 B  (ISO)
bleomycin A2  (EXP)
Bromadiolone  (EXP)
cadmium dichloride  (EXP)
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)
fragrance  (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)
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 fluoride  (ISO)
temozolomide  (ISO)
tert-butyl hydroperoxide  (ISO)
testosterone  (ISO)
tetrachloromethane  (EXP,ISO)
tetracycline  (EXP)
tetrahydropalmatine  (ISO)
thapsigargin  (EXP,ISO)
theophylline  (EXP)
thioacetamide  (ISO)
trichostatin A  (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
mRatBN7.2457,949,086 - 57,976,589 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl457,948,997 - 57,976,593 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx462,932,083 - 62,959,657 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0458,848,234 - 58,875,810 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0457,250,131 - 57,277,707 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0456,625,611 - 56,653,112 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl456,625,561 - 56,653,111 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0456,392,772 - 56,420,273 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4456,228,617 - 56,256,118 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1456,484,215 - 56,512,241 (+)NCBI
Celera453,057,097 - 53,084,601 (+)NCBICelera
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 (+)EnsemblGRCh38hg38GRCh38
GRCh377128,379,413 - 128,413,454 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 367128,166,672 - 128,198,764 (+)NCBINCBI36Build 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 Ensembl
GRCm38629,348,106 - 29,376,675 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl629,348,069 - 29,377,110 (+)EnsemblGRCm38mm10GRCm38
MGSCv37629,298,119 - 29,326,675 (+)NCBIGRCm37MGSCv37mm9NCBIm37
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 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554799,541,574 - 9,572,189 (+)NCBIChiLan1.0ChiLan1.0
CALU
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
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 (+)Ensemblpanpan1.1panPan2
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 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha147,556,743 - 7,586,116 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0147,635,858 - 7,665,254 (-)NCBIROS_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_1.0
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 (+)EnsemblSpeTri2.0SpeTri2.0 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 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
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 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
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_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Calu
50 total Variants
miRNA Target Status

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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
619616Bp79Blood pressure QTL 790.0292arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)4521460278882945Rat
2303168Bp330Blood pressure QTL 3304.250.017arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)45214602146446691Rat
1358203Stl19Serum triglyceride level QTL 192.80.002blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)4521829465958103Rat
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)41081417091360527Rat
2316958Gluco58Glucose level QTL 5810blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)411320076180699135Rat
2303585Bw86Body weight QTL 864body mass (VT:0001259)body weight (CMO:0000012)41467806559678065Rat
2313401Anxrr27Anxiety related response QTL 27aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)41793350862933508Rat
61412Pia2Pristane induced arthritis QTL 23.9joint integrity trait (VT:0010548)post-insult time to onset of experimental arthritis (CMO:0001450)42133334362278020Rat
6909122Insul22Insulin level QTL 224.63blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)42690728575585128Rat
6909128Pancm4Pancreatic morphology QTL 411.35pancreas mass (VT:0010144)pancreas wet weight (CMO:0000626)42690728575585128Rat
8655906Rf60Renal function QTL 603.8blood creatinine amount (VT:0005328)creatinine clearance (CMO:0000765)42949419581006281Rat
12798520Anxrr55Anxiety related response QTL 554.450.01locomotor behavior trait (VT:0001392)number of rearing movements with lid-pushing in an experimental apparatus (CMO:0002715)432583980114627242Rat
8552782Vie1Viral induced encephalitis QTL 126.4brain integrity trait (VT:0010579)encephalitis incidence/prevalence measurement (CMO:0002361)43443048482490359Rat
8552801Bw143Body weight QTL 1437.3body mass (VT:0001259)change in body weight to body weight ratio (CMO:0002216)43443048482490359Rat
8552809Vie5Viral induced encephalitis QTL 525.3brain integrity trait (VT:0010579)encephalitis incidence/prevalence measurement (CMO:0002361)43443048482490359Rat
8655961Kidm43Kidney mass QTL 4318kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)436303261103194984Rat
1358352Srcrt3Stress Responsive Cort QTL 32.29blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)438465774146803430Rat
61475Aia2Adjuvant induced arthritis QTL 25.8joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)43950527573892441Rat
1331807Rf31Renal function QTL 312.988urine potassium amount (VT:0010539)urine potassium level (CMO:0000128)43952426474726312Rat
1300139Hrtrt6Heart rate QTL 62.85heart pumping trait (VT:2000009)heart rate (CMO:0000002)439524264116179656Rat
61445Strs3Sensitivity to stroke QTL 33cerebrum integrity trait (VT:0010549)post-insult time to onset of cerebrovascular lesion (CMO:0002343)44043338885433388Rat
8694439Bw168Body weight QTL 1689.570.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)44043341485433414Rat
6893678Bw108Body weight QTL 1082.60.006body mass (VT:0001259)body weight (CMO:0000012)44345797688457976Rat
1576305Emca6Estrogen-induced mammary cancer QTL 65.8mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)444463720155883716Rat
1354612Foco1Food consumption QTL 18.87eating behavior trait (VT:0001431)food intake rate (CMO:0000427)444463908148090542Rat
1354660Salc1Saline consumption QTL 111.26drinking behavior trait (VT:0001422)saline drink intake rate (CMO:0001627)444463908148090542Rat
2312567Glom19Glomerulus QTL 191.90.006kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)445456990146803430Rat
1298082Stresp4Stress response QTL 4blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)450119848146803430Rat
4889969Bss96Bone structure and strength QTL 964.9tibia size trait (VT:0100001)tibia cortical bone volume (CMO:0001725)45664777678882945Rat
4889972Bss97Bone structure and strength QTL 975.6tibia size trait (VT:0100001)tibia total bone volume (CMO:0001724)45664777678882945Rat
5685009Bmd86Bone mineral density QTL 863.7tibia mineral mass (VT:1000283)bone mineral density (CMO:0001226)45664777678882945Rat
5685012Bmd87Bone mineral density QTL 875.1tibia mineral mass (VT:1000283)bone mineral content (CMO:0001554)45664777678882945Rat
70200Alc18Alcohol consumption QTL 189.2drinking behavior trait (VT:0001422)ethanol intake volume to total fluid intake volume ratio (CMO:0001591)456647873149491524Rat
1641833Alc21Alcohol consumption QTL 218.60.0001drinking behavior trait (VT:0001422)ethanol drink intake rate (CMO:0001407)456698790126192555Rat
634311Sach7Saccharin preference QTL 7taste sensitivity trait (VT:0001986)saccharin intake volume to total fluid intake volume ratio (CMO:0001601)45711443281266970Rat
631546Bp86Blood pressure QTL 863.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)45711443291360801Rat
61336Bp21Blood pressure QTL 214.6arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)45711470578881294Rat
1358363Sradr3Stress Responsive Adrenal Weight QTL 36.19adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)457486946102486946Rat

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
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
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 3 43 57 41 19 41 8 11 74 35 40 11 8
Low 1
Below cutoff

Sequence


RefSeq Acc Id: ENSRNOT00000008356   ⟹   ENSRNOP00000008356
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl457,949,047 - 57,976,593 (+)Ensembl
Rnor_6.0 Ensembl456,625,561 - 56,653,105 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000008972   ⟹   ENSRNOP00000008972
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl457,949,059 - 57,976,593 (+)Ensembl
Rnor_6.0 Ensembl456,625,611 - 56,653,111 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000090808   ⟹   ENSRNOP00000073213
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl457,949,061 - 57,976,593 (+)Ensembl
Rnor_6.0 Ensembl456,625,606 - 56,653,111 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000117112   ⟹   ENSRNOP00000088242
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl457,948,997 - 57,974,350 (+)Ensembl
RefSeq Acc Id: NM_001033898   ⟹   NP_001029070
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
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
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:
RefSeq Acc Id: ENSRNOP00000008972   ⟸   ENSRNOT00000008972
RefSeq Acc Id: ENSRNOP00000008356   ⟸   ENSRNOT00000008356
RefSeq Acc Id: ENSRNOP00000073213   ⟸   ENSRNOT00000090808
RefSeq Acc Id: ENSRNOP00000088242   ⟸   ENSRNOT00000117112
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, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000008356 ENTREZGENE
  ENSRNOT00000008356.6 UniProtKB/TrEMBL
  ENSRNOT00000008972.7 UniProtKB/TrEMBL
  ENSRNOT00000090808 ENTREZGENE
  ENSRNOT00000090808.2 UniProtKB/TrEMBL
  ENSRNOT00000117112.1 UniProtKB/TrEMBL
Gene3D-CATH EF-hand UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7933832 IMAGE-MGC_LOAD
InterPro EF-hand-dom_pair UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  EF_Hand_1_Ca_BS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  EF_hand_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:64366 UniProtKB/TrEMBL
MGC_CLONE MGC:124555 IMAGE-MGC_LOAD
NCBI Gene 64366 ENTREZGENE
PANTHER CALUMENIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR10827:SF76 UniProtKB/TrEMBL
  RETICULOCALBIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam EF-hand_5 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  EF-hand_7 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  EF-hand_8 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Calu PhenoGen
PROSITE EF_HAND_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  EF_HAND_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000006197 RatGTEx
SMART EFh UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF47473 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
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
UniProt Secondary Q3MID6 UniProtKB/TrEMBL


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