CAPN6 (calpain 6) - Rat Genome Database

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Gene: CAPN6 (calpain 6) Canis lupus familiaris
Analyze
Symbol: CAPN6
Name: calpain 6
RGD ID: 12070852
Description: ENCODES a protein that exhibits calcium-dependent cysteine-type endopeptidase activity (inferred); microtubule binding (inferred); INVOLVED IN microtubule bundle formation (inferred); proteolysis (inferred); regulation of cytoskeleton organization (inferred); ASSOCIATED WITH autistic disorder (ortholog); developmental and epileptic encephalopathy 36 (ortholog); genetic disease (ortholog); FOUND IN cytoplasm (inferred); microtubule (inferred); perinuclear region of cytoplasm (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: calpain-6
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: CanFam3.1 - Dog CanFam3.1 Assembly
Position:
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1X84,351,483 - 84,377,365 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 EnsemblX84,351,480 - 84,378,183 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_TashaX70,452,893 - 70,478,661 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0X86,013,239 - 86,039,076 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 EnsemblX86,013,232 - 86,039,110 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1X83,496,162 - 83,521,922 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0X85,173,775 - 85,199,625 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0X85,002,271 - 85,028,105 (-)NCBIUU_Cfam_GSD_1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
CAPN6
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1X84,351,483 - 84,377,365 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 EnsemblX84,351,480 - 84,378,183 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_TashaX70,452,893 - 70,478,661 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0X86,013,239 - 86,039,076 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 EnsemblX86,013,232 - 86,039,110 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1X83,496,162 - 83,521,922 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0X85,173,775 - 85,199,625 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0X85,002,271 - 85,028,105 (-)NCBIUU_Cfam_GSD_1.0
CAPN6
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38X111,245,099 - 111,270,483 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 EnsemblX111,245,099 - 111,270,483 (-)EnsemblGRCh38hg38GRCh38
GRCh37X110,488,327 - 110,513,711 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36X110,374,987 - 110,400,407 (-)NCBINCBI36Build 36hg18NCBI36
Build 34X110,294,475 - 110,319,896NCBI
CeleraX110,967,943 - 110,993,390 (-)NCBICelera
Cytogenetic MapXq23NCBI
HuRefX100,110,837 - 100,136,321 (-)NCBIHuRef
CHM1_1X110,399,827 - 110,425,289 (-)NCBICHM1_1
T2T-CHM13v2.0X109,693,306 - 109,718,689 (-)NCBIT2T-CHM13v2.0
Capn6
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X142,585,232 - 142,610,408 (-)NCBIGRCm39GRCm39mm39
GRCm39 EnsemblX142,585,227 - 142,610,410 (-)EnsemblGRCm39 Ensembl
GRCm38X143,802,236 - 143,827,412 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX143,802,231 - 143,827,414 (-)EnsemblGRCm38mm10GRCm38
MGSCv37X140,236,779 - 140,261,955 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36X139,048,604 - 139,073,663 (-)NCBIMGSCv36mm8
CeleraX127,758,391 - 127,783,584 (-)NCBICelera
Cytogenetic MapXF2NCBI
cM MapX64.83NCBI
Capn6
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X112,177,467 - 112,202,178 (-)NCBIGRCr8
mRatBN7.2X107,380,774 - 107,405,489 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX107,380,774 - 107,405,489 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_UtxX109,518,601 - 109,543,298 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X113,018,304 - 113,043,001 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X110,571,881 - 110,596,588 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X115,049,113 - 115,073,824 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX115,049,154 - 115,073,890 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X113,502,312 - 113,527,023 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X34,697,658 - 34,722,369 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1X34,751,126 - 34,775,838 (+)NCBI
CeleraX106,779,922 - 106,804,635 (-)NCBICelera
Cytogenetic MapXq33NCBI
Capn6
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554904,499,882 - 4,526,060 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554904,499,888 - 4,526,060 (+)NCBIChiLan1.0ChiLan1.0
CAPN6
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2X110,738,095 - 110,763,471 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1X110,741,706 - 110,767,064 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0X100,363,233 - 100,388,631 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1X110,822,550 - 110,847,955 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 EnsemblX110,822,170 - 110,848,000 (-)Ensemblpanpan1.1panPan2
Capn6
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2X83,597,063 - 83,622,272 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364994,035,664 - 4,060,895 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049364994,041,837 - 4,060,895 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CAPN6
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 EnsemblX91,258,688 - 91,288,077 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1X91,258,696 - 91,288,128 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2X105,673,303 - 105,702,721 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CAPN6
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1X99,052,100 - 99,077,508 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 EnsemblX99,051,989 - 99,077,302 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366606524,290,975 - 24,316,307 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Capn6
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248034,339,368 - 4,373,298 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248034,339,368 - 4,373,400 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in CAPN6
202 total Variants

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 reproductive system respiratory system adipose tissue
High
Medium 6 6
Low 6 6 4
Below cutoff 5 2 14 5 1 5 2 8 8 3

Sequence


Reference Sequences
RefSeq Acc Id: ENSCAFT00000028872   ⟹   ENSCAFP00000026850
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 EnsemblX84,351,480 - 84,378,183 (-)Ensembl
RefSeq Acc Id: ENSCAFT00000091991   ⟹   ENSCAFP00000053676
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 EnsemblX84,351,480 - 84,378,183 (-)Ensembl
RefSeq Acc Id: ENSCAFT00845039430   ⟹   ENSCAFP00845030899
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 EnsemblX86,013,232 - 86,039,110 (-)Ensembl
RefSeq Acc Id: XM_038450652   ⟹   XP_038306580
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0X86,013,239 - 86,039,076 (-)NCBI
RefSeq Acc Id: XM_038524116   ⟹   XP_038380044
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.1X83,496,162 - 83,521,922 (-)NCBI
RefSeq Acc Id: XM_038588092   ⟹   XP_038444020
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.0X85,002,271 - 85,028,105 (-)NCBI
RefSeq Acc Id: XM_038652608   ⟹   XP_038508536
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.0X85,173,775 - 85,199,625 (-)NCBI
RefSeq Acc Id: XM_549188   ⟹   XP_549188
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1X84,351,483 - 84,377,364 (-)NCBI
Dog10K_Boxer_TashaX70,452,893 - 70,478,661 (-)NCBI
Sequence:
Reference Protein Sequences
RefSeq Acc Id: XP_549188   ⟸   XM_549188
- UniProtKB: A0A8C0SR05 (UniProtKB/TrEMBL),   A0A8C0QVM2 (UniProtKB/TrEMBL),   A0A8I3PJW4 (UniProtKB/TrEMBL),   A0A8C0JW52 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSCAFP00000026850   ⟸   ENSCAFT00000028872
RefSeq Acc Id: ENSCAFP00000053676   ⟸   ENSCAFT00000091991
RefSeq Acc Id: XP_038380044   ⟸   XM_038524116
RefSeq Acc Id: XP_038508536   ⟸   XM_038652608
RefSeq Acc Id: XP_038306580   ⟸   XM_038450652
- UniProtKB: A0A8C0SR05 (UniProtKB/TrEMBL),   A0A8C0QVM2 (UniProtKB/TrEMBL),   A0A8I3PJW4 (UniProtKB/TrEMBL),   A0A8C0JW52 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038444020   ⟸   XM_038588092
- UniProtKB: A0A8C0JW52 (UniProtKB/TrEMBL),   A0A8C0QVM2 (UniProtKB/TrEMBL),   A0A8C0SR05 (UniProtKB/TrEMBL),   A0A8I3PJW4 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSCAFP00845030899   ⟸   ENSCAFT00845039430
Protein Domains
C2   Calpain catalytic


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000018175 Ensembl, UniProtKB/TrEMBL
  ENSCAFG00030020996 UniProtKB/TrEMBL
  ENSCAFG00040014986 UniProtKB/TrEMBL
  ENSCAFG00845022341 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCAFT00000028872.5 UniProtKB/TrEMBL
  ENSCAFT00030038567.1 UniProtKB/TrEMBL
  ENSCAFT00040027621.1 UniProtKB/TrEMBL
  ENSCAFT00845039430 ENTREZGENE
  ENSCAFT00845039430.1 UniProtKB/TrEMBL
Gene3D-CATH 2.60.120.380 UniProtKB/TrEMBL
  2.60.40.150 UniProtKB/TrEMBL
  Cysteine proteinases UniProtKB/TrEMBL
InterPro C2_Calpain UniProtKB/TrEMBL
  C2_dom UniProtKB/TrEMBL
  C2_domain_sf UniProtKB/TrEMBL
  C2_III UniProtKB/TrEMBL
  Calpain_cysteine_protease UniProtKB/TrEMBL
  Calpain_domain_III UniProtKB/TrEMBL
  Calpain_III UniProtKB/TrEMBL
  Calpain_III_sf UniProtKB/TrEMBL
  Papain-like_cys_pep_sf UniProtKB/TrEMBL
  Peptidase_C2_calpain_cat UniProtKB/TrEMBL
KEGG Report cfa:492068 UniProtKB/TrEMBL
NCBI Gene CAPN6 ENTREZGENE
PANTHER CALPAIN UniProtKB/TrEMBL
  CALPAIN-6 UniProtKB/TrEMBL
Pfam Calpain_III UniProtKB/TrEMBL
  Peptidase_C2 UniProtKB/TrEMBL
  PF00168 UniProtKB/TrEMBL
PRINTS CALPAIN UniProtKB/TrEMBL
PROSITE CALPAIN_CAT UniProtKB/TrEMBL
  PS50004 UniProtKB/TrEMBL
SMART calpain_III UniProtKB/TrEMBL
  CysPc UniProtKB/TrEMBL
  SM00239 UniProtKB/TrEMBL
Superfamily-SCOP SSF49562 UniProtKB/TrEMBL
  SSF49758 UniProtKB/TrEMBL
  SSF54001 UniProtKB/TrEMBL
UniProt A0A8C0JW52 ENTREZGENE
  A0A8C0QVM2 ENTREZGENE
  A0A8C0SR05 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I3PJW4 ENTREZGENE, UniProtKB/TrEMBL
VGNC ID VGNC:38706 ENTREZGENE