Commd6 (COMM domain containing 6) - Rat Genome Database

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Gene: Commd6 (COMM domain containing 6) Rattus norvegicus
Analyze
Symbol: Commd6
Name: COMM domain containing 6
RGD ID: 1560745
Description: Predicted to enable NF-kappaB binding activity. Predicted to be involved in signal transduction. Orthologous to human COMMD6 (COMM domain containing 6); INTERACTS WITH (+)-schisandrin B; 2,3,7,8-tetrachlorodibenzodioxine; bisphenol A.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: COMM domain-containing protein 6; LOC498559; RGD1560745; similar to OTTHUMP00000018508
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81584,882,069 - 84,889,124 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1584,882,548 - 84,889,194 (-)EnsemblGRCr8
mRatBN7.21578,467,333 - 78,474,382 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1578,467,804 - 78,474,382 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1582,478,550 - 82,485,137 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01583,555,117 - 83,561,700 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01580,475,704 - 80,482,291 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01586,136,096 - 86,142,672 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1586,136,096 - 86,142,672 (-)Ensemblrn6Rnor6.0
Rnor_5.01589,902,294 - 89,908,870 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41585,610,757 - 85,617,333 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1577,659,334 - 77,665,911 (-)NCBICelera
Cytogenetic Map15q21NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function
NF-kappaB binding  (IBA,IEA,ISO)
protein binding  (ISO)

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. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:16573520  


Genomics

Comparative Map Data
Commd6
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81584,882,069 - 84,889,124 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1584,882,548 - 84,889,194 (-)EnsemblGRCr8
mRatBN7.21578,467,333 - 78,474,382 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1578,467,804 - 78,474,382 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1582,478,550 - 82,485,137 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01583,555,117 - 83,561,700 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01580,475,704 - 80,482,291 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01586,136,096 - 86,142,672 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1586,136,096 - 86,142,672 (-)Ensemblrn6Rnor6.0
Rnor_5.01589,902,294 - 89,908,870 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41585,610,757 - 85,617,333 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1577,659,334 - 77,665,911 (-)NCBICelera
Cytogenetic Map15q21NCBI
COMMD6
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381375,525,214 - 75,549,439 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1375,525,214 - 75,549,439 (-)Ensemblhg38GRCh38
GRCh371376,099,350 - 76,123,575 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361374,997,351 - 75,009,992 (-)NCBIBuild 36Build 36hg18NCBI36
Celera1356,997,220 - 57,009,856 (-)NCBICelera
Cytogenetic Map13q22.2NCBI
HuRef1356,796,812 - 56,809,435 (-)NCBIHuRef
CHM1_11376,067,101 - 76,079,727 (-)NCBICHM1_1
T2T-CHM13v2.01374,748,878 - 74,773,100 (-)NCBIT2T-CHM13v2.0
Commd6
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3914101,871,202 - 101,877,907 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl14101,870,417 - 101,878,122 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm3814101,633,766 - 101,640,471 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl14101,632,981 - 101,640,686 (-)Ensemblmm10GRCm38
MGSCv3714102,032,983 - 102,039,688 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv3614100,519,523 - 100,526,201 (-)NCBIMGSCv36mm8
Celera14100,272,943 - 100,279,648 (-)NCBICelera
Cytogenetic Map14E2.3NCBI
cM Map1450.9NCBI
Commd6
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540431,473,114 - 31,477,936 (+)Ensembl
ChiLan1.0NW_00495540431,473,054 - 31,487,169 (+)NCBIChiLan1.0ChiLan1.0
COMMD6
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21477,104,626 - 77,116,038 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11375,702,419 - 75,713,781 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01356,752,787 - 56,764,664 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11375,525,977 - 75,537,608 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1375,526,128 - 75,537,499 (-)EnsemblpanPan2panpan1.1
COMMD6
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12229,318,216 - 29,336,032 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2229,318,231 - 29,336,062 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha2229,179,537 - 29,197,347 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.02229,653,476 - 29,671,269 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2229,653,280 - 29,671,498 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12229,304,649 - 29,322,201 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02229,348,179 - 29,365,776 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02229,416,485 - 29,434,474 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Commd6
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404945130,174,604 - 130,179,820 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365115,591,848 - 5,600,270 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049365115,591,851 - 5,596,998 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
COMMD6
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1147,543,814 - 47,818,561 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.11147,795,110 - 47,818,543 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21152,411,290 - 52,431,466 (+)NCBISscrofa10.2Sscrofa10.2susScr3
COMMD6
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1354,625,390 - 54,636,201 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl354,623,834 - 54,636,262 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366604610,768,821 - 10,779,676 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Commd6
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462475124,951,408 - 24,958,893 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Commd6
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11222,941,922 - 22,948,865 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Commd6
53 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:183
Count of miRNA genes:129
Interacting mature miRNAs:141
Transcripts:ENSRNOT00000057830
Prediction methods:Microtar, Miranda, Rnahybrid, 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
1549844Bss7Bone structure and strength QTL 76.4femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)1582194914108192169Rat
2300326Plaw1Placental weight QTL 1150.005placenta mass (VT:0004257)placenta wet weight (CMO:0002088)1574735564106469153Rat
1358354Srcrt5Stress Responsive Cort QTL 53.38blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)1582503470108192169Rat
70155Gcs1Gastric cancer susceptibility QTL13.8stomach morphology trait (VT:0000470)stomach tumor susceptibility score (CMO:0002043)1582714037106778197Rat
1582227Gluco30Glucose level QTL 303.60.0003blood glucose amount (VT:0000188)absolute change in blood glucose level area under curve (CMO:0002034)154367724488677244Rat
1582228Epfw3Epididymal fat weight QTL 34.10.0002epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)154367724488677244Rat
1578646Bmd18Bone mineral density QTL 185.2femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)1525285835104695021Rat
1578647Bmd17Bone mineral density QTL 174femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)1525285835104695021Rat
7411646Foco21Food consumption QTL 2123.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)1584278281108192169Rat
631516Gluco31Glucose level QTL 317blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1572716871101425383Rat
2298549Neuinf12Neuroinflammation QTL 123.5nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)1561710951106710951Rat
1331724Bp223Blood pressure QTL 2233.53715arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1575928947101425383Rat
2317050Aia24Adjuvant induced arthritis QTL 242.06joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)1559257087104257087Rat
2313080Bss65Bone structure and strength QTL 653.90.0001long bone metaphysis morphology trait (VT:0000133)tibia midshaft total cross-sectional area (CMO:0001715)1567399137108192169Rat
2317055Aia10Adjuvant induced arthritis QTL 103.41joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)1582194914108192169Rat
1582214Stl21Serum triglyceride level QTL 213.10.022blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)154367724488677244Rat
1300144Rf23Renal function QTL 233.61renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)1544806773104695021Rat
1576315Schws6Schwannoma susceptibility QTL 60.0069nervous system integrity trait (VT:0010566)post-insult time of death (CMO:0002005)1560213984105213984Rat
61477Aia4Adjuvant induced arthritis QTL 43joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)156244089297773284Rat
70182BpQTLcluster12Blood pressure QTL cluster 123.53arterial blood pressure trait (VT:2000000)absolute change in mean arterial blood pressure (CMO:0000533)1572716871101425383Rat
152025253Hrtrt24Heart rate QTL 243.82heart pumping trait (VT:2000009)153185580392671517Rat
1581555Eae19Experimental allergic encephalomyelitis QTL 194.7nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis severity score (CMO:0001419)158271393186775589Rat
631655Bp126Blood pressure QTL 1264arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1564571127108192169Rat
61424Scl1Serum cholesterol level QTL 17.70.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)151915576287086765Rat
1598828Glom14Glomerulus QTL 142.5kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)154046315285463152Rat
1641889Colcr6Colorectal carcinoma resistance QTL 62.90.0126intestine integrity trait (VT:0010554)benign colorectal tumor surface area measurement (CMO:0001799)1583700787108192169Rat
1582242Gluco28Glucose level QTL 283.30.0008blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)154367724488677244Rat
1578660Bss19Bone structure and strength QTL 194.3femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)1525285835104695021Rat
1582244Bw79Body weight QTL 7940.0002epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)154367724488677244Rat

Markers in Region
RH134357  
Rat AssemblyChrPosition (strand)SourceJBrowse
RH 3.4 Map7786.4UniSTS
Cytogenetic Map15q21UniSTS
AA850154  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21578,467,718 - 78,467,861 (+)MAPPERmRatBN7.2
Rnor_6.01586,136,009 - 86,136,151NCBIRnor6.0
Rnor_5.01589,902,207 - 89,902,349UniSTSRnor5.0
RGSC_v3.41585,610,670 - 85,610,812UniSTSRGSC3.4
Celera1577,659,247 - 77,659,389UniSTS
RH 3.4 Map15504.09UniSTS
Cytogenetic Map15q21UniSTS


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 67 173 91 90 59 93 59 6 369 193 11 152 93 92 31 25 25

Sequence


Ensembl Acc Id: ENSRNOT00000057830   ⟹   ENSRNOP00000054640
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1584,882,548 - 84,889,124 (-)Ensembl
mRatBN7.2 Ensembl1578,467,806 - 78,474,382 (-)Ensembl
Rnor_6.0 Ensembl1586,136,096 - 86,142,672 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000120224   ⟹   ENSRNOP00000097644
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1584,882,548 - 84,889,194 (-)Ensembl
mRatBN7.2 Ensembl1578,467,804 - 78,474,227 (-)Ensembl
RefSeq Acc Id: NM_001109105   ⟹   NP_001102575
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81584,882,548 - 84,889,124 (-)NCBI
mRatBN7.21578,467,806 - 78,474,382 (-)NCBI
Rnor_6.01586,136,096 - 86,142,672 (-)NCBI
Rnor_5.01589,902,294 - 89,908,870 (-)NCBI
RGSC_v3.41585,610,757 - 85,617,333 (-)RGD
Celera1577,659,334 - 77,665,911 (-)RGD
Sequence:
RefSeq Acc Id: XM_063274567   ⟹   XP_063130637
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81584,882,069 - 84,888,994 (-)NCBI
RefSeq Acc Id: XM_063274568   ⟹   XP_063130638
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81584,882,069 - 84,886,092 (-)NCBI
RefSeq Acc Id: NP_001102575   ⟸   NM_001109105
- UniProtKB: D4A8E7 (UniProtKB/TrEMBL),   A6HU73 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000054640   ⟸   ENSRNOT00000057830
Ensembl Acc Id: ENSRNOP00000097644   ⟸   ENSRNOT00000120224
RefSeq Acc Id: XP_063130637   ⟸   XM_063274567
- Peptide Label: isoform X1
- UniProtKB: A0A8I6AV93 (UniProtKB/TrEMBL),   A6HU72 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063130638   ⟸   XM_063274568
- Peptide Label: isoform X2
Protein Domains
COMM

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D4A8E7-F1-model_v2 AlphaFold D4A8E7 1-108 view protein structure

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:1560745 AgrOrtholog
BioCyc Gene G2FUF-12751 BioCyc
Ensembl Genes ENSRNOG00000038012 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000057830 ENTREZGENE
  ENSRNOT00000057830.4 UniProtKB/TrEMBL
  ENSRNOT00000120224 ENTREZGENE
  ENSRNOT00000120224.2 UniProtKB/TrEMBL
InterPro COMM UniProtKB/TrEMBL
  COMMD4/6/7/8 UniProtKB/TrEMBL
KEGG Report rno:498559 UniProtKB/TrEMBL
NCBI Gene 498559 ENTREZGENE
PANTHER COMM DOMAIN-CONTAINING PROTEIN 4-8 FAMILY MEMBER UniProtKB/TrEMBL
  COMM DOMAIN-CONTAINING PROTEIN 6 UniProtKB/TrEMBL
Pfam HCaRG UniProtKB/TrEMBL
PhenoGen Commd6 PhenoGen
PROSITE COMM UniProtKB/TrEMBL
RatGTEx ENSRNOG00000038012 RatGTEx
UniProt A0A8I6AV93 ENTREZGENE, UniProtKB/TrEMBL
  A6HU72 ENTREZGENE, UniProtKB/TrEMBL
  A6HU73 ENTREZGENE, UniProtKB/TrEMBL
  D4A8E7 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-02-28 Commd6  COMM domain containing 6  RGD1560745_predicted  similar to OTTHUMP00000018508 (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-07 RGD1560745_predicted  similar to OTTHUMP00000018508 (predicted)  LOC498559  similar to OTTHUMP00000018508  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC498559  similar to OTTHUMP00000018508      Symbol and Name status set to provisional 70820 PROVISIONAL