Calhm6 (calcium homeostasis modulator family member 6) - Rat Genome Database

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Gene: Calhm6 (calcium homeostasis modulator family member 6) Rattus norvegicus
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Symbol: Calhm6
Name: calcium homeostasis modulator family member 6
RGD ID: 1304835
Description: Predicted to enable monoatomic cation channel activity. Predicted to be involved in ATP export; monoatomic cation transmembrane transport; and regulation of natural killer cell cytokine production. Predicted to be located in immunological synapse. Predicted to be active in plasma membrane. Orthologous to human CALHM6 (calcium homeostasis modulator family member 6); INTERACTS WITH 17beta-estradiol; 17beta-estradiol 3-benzoate; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: calcium homeostasis modulator protein 6; Fam26f; family with sequence similarity 26, member F; hypothetical protein LOC294430; LOC294430; RGD1304835; similar to chromosome 6 open reading frame 188
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr82026,638,721 - 26,640,466 (-)NCBIGRCr8
mRatBN7.22026,095,591 - 26,097,336 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2026,095,592 - 26,097,278 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx2027,097,854 - 27,099,524 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.02026,484,199 - 26,485,869 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.02027,232,378 - 27,234,048 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.02027,681,138 - 27,683,580 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2027,681,036 - 27,682,861 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02029,505,895 - 29,507,565 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42037,668,509 - 37,670,179 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.12037,689,664 - 37,691,334 (+)NCBI
Celera2027,549,278 - 27,550,948 (-)NCBICelera
Cytogenetic Map20q11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

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. GOA pipeline RGD automated data pipeline
3. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:12477932   PMID:15489334  


Genomics

Comparative Map Data
Calhm6
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr82026,638,721 - 26,640,466 (-)NCBIGRCr8
mRatBN7.22026,095,591 - 26,097,336 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2026,095,592 - 26,097,278 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx2027,097,854 - 27,099,524 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.02026,484,199 - 26,485,869 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.02027,232,378 - 27,234,048 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.02027,681,138 - 27,683,580 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2027,681,036 - 27,682,861 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02029,505,895 - 29,507,565 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42037,668,509 - 37,670,179 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.12037,689,664 - 37,691,334 (+)NCBI
Celera2027,549,278 - 27,550,948 (-)NCBICelera
Cytogenetic Map20q11NCBI
CALHM6
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh386116,461,375 - 116,463,771 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl6116,461,370 - 116,463,771 (+)EnsemblGRCh38hg38GRCh38
GRCh376116,782,538 - 116,784,934 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 366116,889,249 - 116,891,627 (+)NCBINCBI36Build 36hg18NCBI36
Celera6117,525,623 - 117,528,003 (+)NCBICelera
Cytogenetic Map6q22.1NCBI
HuRef6114,362,389 - 114,364,792 (+)NCBIHuRef
CHM1_16117,046,176 - 117,048,577 (+)NCBICHM1_1
T2T-CHM13v2.06117,645,096 - 117,647,492 (+)NCBIT2T-CHM13v2.0
Calhm6
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391034,002,063 - 34,003,968 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1034,002,063 - 34,003,980 (-)EnsemblGRCm39 Ensembl
GRCm381034,126,067 - 34,127,972 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1034,126,067 - 34,127,984 (-)EnsemblGRCm38mm10GRCm38
MGSCv371033,845,873 - 33,847,778 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361033,815,485 - 33,817,388 (-)NCBIMGSCv36mm8
Celera1035,035,780 - 35,037,686 (-)NCBICelera
Cytogenetic Map10B1NCBI
cM Map1018.85NCBI
Calhm6
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_004955526319,920 - 321,985 (-)NCBIChiLan1.0ChiLan1.0
CALHM6
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v25136,468,847 - 136,471,457 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan16134,361,834 - 134,364,454 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v06114,263,062 - 114,265,898 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.16118,409,641 - 118,411,651 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl6118,409,813 - 118,411,574 (+)Ensemblpanpan1.1panPan2
CALHM6
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1156,894,565 - 56,896,665 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl156,894,631 - 56,896,481 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha157,689,611 - 57,691,794 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0157,076,273 - 57,078,476 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl157,076,422 - 57,078,292 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1156,970,750 - 56,972,941 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0156,818,915 - 56,821,109 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0157,447,758 - 57,449,845 (+)NCBIUU_Cfam_GSD_1.0
Calhm6
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404946107,294,056 - 107,295,902 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049368241,019,154 - 1,020,961 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049368241,019,124 - 1,020,871 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CALHM6
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl182,085,714 - 82,087,889 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1182,085,781 - 82,087,897 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2192,328,297 - 92,329,976 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CALHM6
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11357,352,225 - 57,354,127 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1357,349,681 - 57,354,318 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604029,680,433 - 29,682,660 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Calhm6
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248561,986,546 - 1,992,578 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248561,989,913 - 1,992,496 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:73
Count of miRNA genes:66
Interacting mature miRNAs:69
Transcripts:ENSRNOT00000057317
Prediction methods:Microtar, 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
4889610Pancm3Pancreatic morphology QTL 33.750.001pancreas mass (VT:0010144)pancreas wet weight (CMO:0000626)201761783247606836Rat
2303587Bw93Body weight QTL 9313body mass (VT:0001259)body weight (CMO:0000012)202510672254435887Rat
4889870Pur30Proteinuria QTL 30190.005urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)20804241029322208Rat
9590109Sffal8Serum free fatty acids level QTL 85.320.01blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)20129191651Rat
9590275Scort15Serum corticosterone level QTL 153.480.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20129191651Rat
2317880Alcrsp25Alcohol response QTL 252.3response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)201769755054435887Rat
6893685Bw111Body weight QTL 1112.70.004body mass (VT:0001259)body weight (CMO:0000012)20132578807Rat
9590092Insglur9Insulin/glucose ratio QTL 918.380.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)201175751554435887Rat
1641915Colcr9Colorectal carcinoma resistance QTL 92.970.0024intestine integrity trait (VT:0010554)benign colorectal tumor number (CMO:0001795)20153065546530655Rat
2317057Aia27Adjuvant induced arthritis QTL 272.83joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)20289259726381954Rat
7387283Uae44Urinary albumin excretion QTL 440.1712urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)20126123605Rat
7411668Foco32Food consumption QTL 3280.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20136600972Rat
2305926Iddm37Insulin dependent diabetes mellitus QTL 376blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)20152784246527842Rat
8694189Bw153Body weight QTL 1533.130.001body mass (VT:0001259)body weight gain (CMO:0000420)20129191651Rat
2303626Vencon10Ventilatory control QTL 100.001respiration trait (VT:0001943)respiration rate (CMO:0000289)201919072154435887Rat
9589155Insul32Insulin level QTL 326.380.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)20129191651Rat
7411650Foco23Food consumption QTL 2320.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20129191651Rat
7411652Foco24Food consumption QTL 240.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)201175751554435887Rat
1331747Hrtrt16Heart rate QTL 163.163heart pumping trait (VT:2000009)heart rate (CMO:0000002)202520973454435887Rat
2317851Alcrsp22Alcohol response QTL 223.20.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)20127339237Rat
1598816Memor12Memory QTL 122.4exploratory behavior trait (VT:0010471)average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)20260683647606836Rat
2303578Gluco50Glucose level QTL 502blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)202510672254435887Rat
1641893Alcrsp7Alcohol response QTL 7response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)20127339237Rat
9590252Scort12Serum corticosterone level QTL 1220.460.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20136600972Rat
2300188Bmd68Bone mineral density QTL 686.40.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)202510672254435887Rat

Markers in Region
RH130097  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22026,095,648 - 26,095,818 (+)MAPPERmRatBN7.2
Rnor_6.02027,681,196 - 27,681,365NCBIRnor6.0
Rnor_5.02029,505,953 - 29,506,122UniSTSRnor5.0
RGSC_v3.42037,669,952 - 37,670,121UniSTSRGSC3.4
Celera2027,549,336 - 27,549,505UniSTS
Cytogenetic Map20q11UniSTS


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 10 28 66 89 88 57 25 57 6 186 75 46 37 50 31

Sequence


Ensembl Acc Id: ENSRNOT00000057317   ⟹   ENSRNOP00000054134
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2026,095,592 - 26,097,278 (-)Ensembl
Rnor_6.0 Ensembl2027,681,036 - 27,682,861 (-)Ensembl
RefSeq Acc Id: NM_001024976   ⟹   NP_001020147
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr82026,638,721 - 26,640,391 (-)NCBI
mRatBN7.22026,095,591 - 26,097,261 (-)NCBI
Rnor_6.02027,681,138 - 27,682,808 (-)NCBI
Rnor_5.02029,505,895 - 29,507,565 (-)NCBI
RGSC_v3.42037,668,509 - 37,670,179 (+)RGD
Celera2027,549,278 - 27,550,948 (-)RGD
Sequence:
RefSeq Acc Id: XM_008772880   ⟹   XP_008771102
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr82026,638,721 - 26,640,466 (-)NCBI
mRatBN7.22026,095,591 - 26,097,336 (-)NCBI
Rnor_6.02027,681,138 - 27,683,580 (-)NCBI
Sequence:
RefSeq Acc Id: NP_001020147   ⟸   NM_001024976
- UniProtKB: Q561R8 (UniProtKB/Swiss-Prot),   A6K3S8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008771102   ⟸   XM_008772880
- Peptide Label: isoform X1
- Sequence:
Ensembl Acc Id: ENSRNOP00000054134   ⟸   ENSRNOT00000057317

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q561R8-F1-model_v2 AlphaFold Q561R8 1-315 view protein structure

Transcriptome

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

Promoters
RGD ID:13701577
Promoter ID:EPDNEW_R12100
Type:single initiation site
Name:Calhm6_1
Description:calcium homeostasis modulator family member 6
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_6.02027,682,825 - 27,682,885EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1304835 AgrOrtholog
BioCyc Gene G2FUF-3792 BioCyc
Ensembl Genes ENSRNOG00000037757 Ensembl, UniProtKB/Swiss-Prot
  ENSRNOG00055009614 UniProtKB/Swiss-Prot
  ENSRNOG00060002986 UniProtKB/Swiss-Prot
  ENSRNOG00065024653 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000057317.5 UniProtKB/Swiss-Prot
  ENSRNOT00055016260 UniProtKB/Swiss-Prot
  ENSRNOT00060004873 UniProtKB/Swiss-Prot
  ENSRNOT00065042321 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7388112 IMAGE-MGC_LOAD
InterPro CALHM UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:294430 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE MGC:112673 IMAGE-MGC_LOAD
NCBI Gene 294430 ENTREZGENE
PANTHER CALCIUM HOMEOSTASIS MODULATOR PROTEIN UniProtKB/TrEMBL
  CALCIUM HOMEOSTASIS MODULATOR PROTEIN 6 UniProtKB/TrEMBL
  PTHR32261 UniProtKB/Swiss-Prot
  PTHR32261:SF4 UniProtKB/Swiss-Prot
Pfam Ca_hom_mod UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Calhm6 PhenoGen
RatGTEx ENSRNOG00000037757 RatGTEx
  ENSRNOG00055009614 RatGTEx
  ENSRNOG00060002986 RatGTEx
  ENSRNOG00065024653 RatGTEx
UniProt A6K3S8 ENTREZGENE, UniProtKB/TrEMBL
  CAHM6_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2017-07-31 Calhm6  calcium homeostasis modulator family member 6  Fam26f  family with sequence similarity 26, member F  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-06 Fam26f  family with sequence similarity 26, member F  RGD1304835  similar to chromosome 6 open reading frame 188  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-12-06 RGD1304835  similar to chromosome 6 open reading frame 188  RGD1304835_predicted  similar to chromosome 6 open reading frame 188 (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-20 RGD1304835_predicted  similar to chromosome 6 open reading frame 188 (predicted)  LOC294430_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC294430_predicted  similar to chromosome 6 open reading frame 188 (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL