Symbol:
Capn9
Name:
calpain 9
RGD ID:
70965
Description:
Predicted to enable calcium-dependent cysteine-type endopeptidase activity. Predicted to be involved in proteolysis. Predicted to be active in cytoplasm. Biomarker of hypertension. Human ortholog(s) of this gene implicated in stomach cancer. Orthologous to human CAPN9 (calpain 9); INTERACTS WITH 1-naphthyl isothiocyanate; acetamide; ammonium chloride.
Type:
protein-coding
RefSeq Status:
VALIDATED
Previously known as:
calpain 9 (nCL-4); calpain-9; digestive tract-specific calpain; Ncl-4; new calpain 4
RGD Orthologs
Alliance Orthologs
More Info
more info ...
More Info
Species
Gene symbol and name
Data Source
Assertion derived from
less info ...
Orthologs 1
Homo sapiens (human):
CAPN9 (calpain 9) HGNC
EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, OrthoMCL, Panther, Treefam
Mus musculus (house mouse):
Capn9 (calpain 9) Transitive Ortholog Pipeline
Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):
Capn9 (calpain 9) Transitive Ortholog Pipeline
Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):
CAPN9 (calpain 9) Transitive Ortholog Pipeline
Transitive Ortholog Pipeline
Canis lupus familiaris (dog):
CAPN9 (calpain 9) Transitive Ortholog Pipeline
Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):
Capn9 (calpain 9) Transitive Ortholog Pipeline
Transitive Ortholog Pipeline
Sus scrofa (pig):
CAPN9 (calpain 9) Transitive Ortholog Pipeline
Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):
CAPN9 (calpain 9) Transitive Ortholog Pipeline
Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):
Capn9 (calpain 9) Transitive Ortholog Pipeline
Transitive Ortholog Pipeline
Alliance orthologs 3
Homo sapiens (human):
CAPN9 (calpain 9)
Alliance
DIOPT (Ensembl Compara|HGNC|Hieranoid|InParanoid|OMA|OrthoFinder|OrthoInspector|PANTHER|PhylomeDB|SonicParanoid)
Mus musculus (house mouse):
Capn9 (calpain 9)
Alliance
DIOPT (Ensembl Compara|Hieranoid|InParanoid|OMA|OrthoFinder|OrthoInspector|PANTHER|PhylomeDB|SonicParanoid)
Danio rerio (zebrafish):
capn9 (calpain 9)
Alliance
DIOPT (Ensembl Compara|Hieranoid|InParanoid|OMA|OrthoFinder|OrthoInspector|PANTHER|PhylomeDB|SonicParanoid)
Drosophila melanogaster (fruit fly):
CalpA
Alliance
DIOPT (Ensembl Compara|Hieranoid|InParanoid|OrthoFinder|OrthoInspector|PANTHER|SonicParanoid)
Caenorhabditis elegans (roundworm):
clp-1
Alliance
DIOPT (Ensembl Compara|Hieranoid|InParanoid|OMA|OrthoFinder|OrthoInspector|PANTHER|PhylomeDB|SonicParanoid)
Caenorhabditis elegans (roundworm):
clp-7
Alliance
DIOPT (Ensembl Compara|Hieranoid|InParanoid|OrthoFinder|OrthoInspector|PANTHER|PhylomeDB|SonicParanoid)
Caenorhabditis elegans (roundworm):
clp-3
Alliance
DIOPT (Ensembl Compara|OrthoFinder|PANTHER|PhylomeDB)
Xenopus tropicalis (tropical clawed frog):
capn9
Alliance
DIOPT (Ensembl Compara|OMA|OrthoFinder|PANTHER|PhylomeDB)
Latest Assembly:
GRCr8 - GRCr8 Assembly
Position:
Rat Assembly Chr Position (strand) Source Genome Browsers JBrowse NCBI UCSC Ensembl GRCr8 19 69,446,847 - 69,483,810 (+) NCBI GRCr8 mRatBN7.2 19 52,549,448 - 52,586,413 (+) NCBI mRatBN7.2 mRatBN7.2 mRatBN7.2 Ensembl 19 52,549,448 - 52,586,413 (+) Ensembl mRatBN7.2 Ensembl UTH_Rnor_SHR_Utx 19 59,334,438 - 59,371,384 (+) NCBI Rnor_SHR UTH_Rnor_SHR_Utx UTH_Rnor_SHRSP_BbbUtx_1.0 19 60,186,063 - 60,223,037 (+) NCBI Rnor_SHRSP UTH_Rnor_SHRSP_BbbUtx_1.0 UTH_Rnor_WKY_Bbb_1.0 19 62,260,893 - 62,297,832 (+) NCBI Rnor_WKY UTH_Rnor_WKY_Bbb_1.0 Rnor_6.0 19 57,341,938 - 57,378,901 (+) NCBI Rnor6.0 Rnor_6.0 rn6 Rnor6.0 Rnor_6.0 Ensembl 19 57,341,938 - 57,378,901 (+) Ensembl Rnor6.0 rn6 Rnor6.0 Rnor_5.0 19 68,047,157 - 68,084,264 (+) NCBI Rnor5.0 Rnor_5.0 rn5 Rnor5.0 RGSC_v3.4 19 54,759,009 - 54,796,390 (+) NCBI RGSC3.4 RGSC_v3.4 rn4 RGSC3.4 RGSC_v3.1 19 54,763,943 - 54,801,111 (+) NCBI Celera 19 51,919,286 - 51,955,889 (+) NCBI Celera Cytogenetic Map 19 q12 NCBI
JBrowse:
View Region in Genome Browser (JBrowse)
Model
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.
Rat ISS GO annotations from GOA human gene data--August 2006
GOA data from the GO Consortium
3.
Molecular cloning and characterization of a novel tissue-specific calpain predominantly expressed in the digestive tract.
Lee HJ, etal., Biol Chem 1998 Feb;379(2):175-83.
4.
Down-regulation of calpain 9 is linked to hypertensive heart and kidney disease.
Markmann A, etal., Cell Physiol Biochem. 2005;15(1-4):109-16. doi: 10.1159/000083643.
5.
Gene Data Set
MGD Curation, June 12, 2002
6.
Rat ISS GO annotations from MGI mouse gene data--August 2006
MGD data from the GO Consortium
7.
Electronic Transfer of LocusLink and RefSeq Data
NCBI rat LocusLink and RefSeq merged data July 26, 2002
8.
GOA pipeline
RGD automated data pipeline
9.
Data Import for Chemical-Gene Interactions
RGD automated import pipeline for gene-chemical interactions
10.
Comprehensive gene review and curation
RGD comprehensive gene curation
11.
Isolation of two novel genes, down-regulated in gastric cancer.
Yoshikawa Y, etal., Jpn J Cancer Res 2000 May;91(5):459-63.
Capn9 Rat Assembly Chr Position (strand) Source Genome Browsers JBrowse NCBI UCSC Ensembl GRCr8 19 69,446,847 - 69,483,810 (+) NCBI GRCr8 mRatBN7.2 19 52,549,448 - 52,586,413 (+) NCBI mRatBN7.2 mRatBN7.2 mRatBN7.2 Ensembl 19 52,549,448 - 52,586,413 (+) Ensembl mRatBN7.2 Ensembl UTH_Rnor_SHR_Utx 19 59,334,438 - 59,371,384 (+) NCBI Rnor_SHR UTH_Rnor_SHR_Utx UTH_Rnor_SHRSP_BbbUtx_1.0 19 60,186,063 - 60,223,037 (+) NCBI Rnor_SHRSP UTH_Rnor_SHRSP_BbbUtx_1.0 UTH_Rnor_WKY_Bbb_1.0 19 62,260,893 - 62,297,832 (+) NCBI Rnor_WKY UTH_Rnor_WKY_Bbb_1.0 Rnor_6.0 19 57,341,938 - 57,378,901 (+) NCBI Rnor6.0 Rnor_6.0 rn6 Rnor6.0 Rnor_6.0 Ensembl 19 57,341,938 - 57,378,901 (+) Ensembl Rnor6.0 rn6 Rnor6.0 Rnor_5.0 19 68,047,157 - 68,084,264 (+) NCBI Rnor5.0 Rnor_5.0 rn5 Rnor5.0 RGSC_v3.4 19 54,759,009 - 54,796,390 (+) NCBI RGSC3.4 RGSC_v3.4 rn4 RGSC3.4 RGSC_v3.1 19 54,763,943 - 54,801,111 (+) NCBI Celera 19 51,919,286 - 51,955,889 (+) NCBI Celera Cytogenetic Map 19 q12 NCBI
CAPN9 Human Assembly Chr Position (strand) Source Genome Browsers JBrowse NCBI UCSC Ensembl GRCh38 1 230,747,388 - 230,801,989 (+) NCBI GRCh38 GRCh38 hg38 GRCh38 GRCh38.p14 Ensembl 1 230,747,384 - 230,802,003 (+) Ensembl GRCh38 hg38 GRCh38 GRCh37 1 230,883,134 - 230,937,735 (+) NCBI GRCh37 GRCh37 hg19 GRCh37 Build 36 1 228,949,753 - 229,004,372 (+) NCBI NCBI36 Build 36 hg18 NCBI36 Build 34 1 227,189,864 - 227,244,253 NCBI Celera 1 204,149,151 - 204,203,730 (+) NCBI Celera Cytogenetic Map 1 q42.2 NCBI HuRef 1 201,367,929 - 201,422,446 (+) NCBI HuRef CHM1_1 1 232,156,149 - 232,210,762 (+) NCBI CHM1_1 T2T-CHM13v2.0 1 230,127,941 - 230,182,452 (+) NCBI T2T-CHM13v2.0
Capn9 Mouse Assembly Chr Position (strand) Source Genome Browsers JBrowse NCBI UCSC Ensembl GRCm39 8 125,301,361 - 125,345,470 (+) NCBI GRCm39 GRCm39 mm39 GRCm39 Ensembl 8 125,302,850 - 125,345,470 (+) Ensembl GRCm39 Ensembl GRCm38 8 124,576,062 - 124,618,731 (+) NCBI GRCm38 GRCm38 mm10 GRCm38 GRCm38.p6 Ensembl 8 124,576,111 - 124,618,731 (+) Ensembl GRCm38 mm10 GRCm38 MGSCv37 8 127,100,011 - 127,142,631 (+) NCBI GRCm37 MGSCv37 mm9 NCBIm37 MGSCv36 8 127,462,201 - 127,504,812 (+) NCBI MGSCv36 mm8 Celera 8 128,879,934 - 128,910,507 (+) NCBI Celera Cytogenetic Map 8 E2 NCBI cM Map 8 72.81 NCBI
Capn9 Chinchilla Assembly Chr Position (strand) Source Genome Browsers JBrowse NCBI UCSC Ensembl ChiLan1.0 Ensembl NW_004955492 7,809,188 - 7,845,090 (-) Ensembl ChiLan1.0 ChiLan1.0 NW_004955492 7,809,188 - 7,845,090 (-) NCBI ChiLan1.0 ChiLan1.0
CAPN9 Bonobo Assembly Chr Position (strand) Source Genome Browsers JBrowse NCBI UCSC Ensembl NHGRI_mPanPan1-v2 1 18,411,108 - 18,459,432 (-) NCBI NHGRI_mPanPan1-v2 NHGRI_mPanPan1 1 18,602,251 - 18,651,772 (-) NCBI NHGRI_mPanPan1 Mhudiblu_PPA_v0 1 206,297,088 - 206,347,427 (+) NCBI Mhudiblu_PPA_v0 Mhudiblu_PPA_v0 panPan3 PanPan1.1 1 211,324,405 - 211,378,944 (+) NCBI panpan1.1 PanPan1.1 panPan2 PanPan1.1 Ensembl 1 211,324,405 - 211,378,944 (+) Ensembl panpan1.1 panPan2
CAPN9 Dog Assembly Chr Position (strand) Source Genome Browsers JBrowse NCBI UCSC Ensembl CanFam3.1 4 8,613,222 - 8,653,534 (-) NCBI CanFam3.1 CanFam3.1 canFam3 CanFam3.1 CanFam3.1 Ensembl 4 8,612,682 - 8,653,467 (-) Ensembl CanFam3.1 canFam3 CanFam3.1 Dog10K_Boxer_Tasha 4 8,604,905 - 8,645,249 (-) NCBI Dog10K_Boxer_Tasha ROS_Cfam_1.0 4 8,637,647 - 8,677,873 (-) NCBI ROS_Cfam_1.0 ROS_Cfam_1.0 Ensembl 4 8,637,107 - 8,678,521 (-) Ensembl ROS_Cfam_1.0 Ensembl UMICH_Zoey_3.1 4 8,641,831 - 8,682,029 (-) NCBI UMICH_Zoey_3.1 UNSW_CanFamBas_1.0 4 8,763,717 - 8,803,940 (-) NCBI UNSW_CanFamBas_1.0 UU_Cfam_GSD_1.0 4 8,993,883 - 9,034,136 (-) NCBI UU_Cfam_GSD_1.0
Capn9 Squirrel Assembly Chr Position (strand) Source Genome Browsers JBrowse NCBI UCSC Ensembl HiC_Itri_2 NW_024409344 43,506,573 - 43,534,017 (-) NCBI HiC_Itri_2 SpeTri2.0 Ensembl NW_004936484 19,671,964 - 19,699,161 (-) Ensembl SpeTri2.0 SpeTri2.0 Ensembl SpeTri2.0 NW_004936484 19,671,799 - 19,699,161 (-) NCBI SpeTri2.0 SpeTri2.0 SpeTri2.0
CAPN9 Pig Assembly Chr Position (strand) Source Genome Browsers JBrowse NCBI UCSC Ensembl Sscrofa11.1 Ensembl 14 59,582,046 - 59,623,376 (-) Ensembl Sscrofa11.1 susScr11 Sscrofa11.1 Sscrofa11.1 14 59,581,999 - 59,623,553 (-) NCBI Sscrofa11.1 Sscrofa11.1 susScr11 Sscrofa11.1 Sscrofa10.2 14 64,246,812 - 64,288,645 (-) NCBI Sscrofa10.2 Sscrofa10.2 susScr3
CAPN9 Green Monkey Assembly Chr Position (strand) Source Genome Browsers JBrowse NCBI UCSC Ensembl ChlSab1.1 25 68,018,785 - 68,072,299 (+) NCBI ChlSab1.1 ChlSab1.1 chlSab2 ChlSab1.1 Ensembl 25 68,019,375 - 68,072,123 (+) Ensembl ChlSab1.1 ChlSab1.1 Ensembl chlSab2 Vero_WHO_p1.0 NW_023666055 69,925,003 - 69,973,406 (+) NCBI Vero_WHO_p1.0 Vero_WHO_p1.0
Capn9
.
Predicted Target Of
Count of predictions: 89 Count of miRNA genes: 79 Interacting mature miRNAs: 83 Transcripts: ENSRNOT00000025357 Prediction methods: Microtar, Miranda, Rnahybrid, Targetscan Result types: miRGate_prediction
2313395 Anxrr26 Anxiety related response QTL 26 aggression-related behavior trait (VT:0015014) tameness/aggressiveness composite score (CMO:0002136) 19 49976481 53225766 Rat 1578764 Stresp19 Stress response QTL 19 3.6 0.001 blood renin amount (VT:0003349) plasma renin activity level (CMO:0000116) 19 15630201 57337602 Rat 61350 Bp32 Blood pressure QTL 32 0.012 arterial blood pressure trait (VT:2000000) systolic blood pressure (CMO:0000004) 19 20483575 57337602 Rat 5135224 Leukc1 Leukocyte quantity QTL 1 eosinophil quantity (VT:0002602) blood eosinophil count (CMO:0000033) 19 44340214 55283277 Rat 724546 Kidm3 Kidney mass QTL 3 3.1 kidney mass (VT:0002707) calculated kidney weight (CMO:0000160) 19 29322490 57337602 Rat 7411549 Bw130 Body weight QTL 130 5 0.001 body mass (VT:0001259) body weight gain (CMO:0000420) 19 15455860 57337602 Rat 1358200 Insglur2 Insulin/glucose ratio QTL 2 4.1 blood glucose amount (VT:0000188) serum glucose level (CMO:0000543) 19 33838214 55283146 Rat 724566 Uae12 Urinary albumin excretion QTL 12 5 urine albumin amount (VT:0002871) urine albumin level (CMO:0000130) 19 2187927 56457239 Rat 1331737 Uae29 Urinary albumin excretion QTL 29 5.5 urine albumin amount (VT:0002871) urine albumin level (CMO:0000130) 19 4096155 55283277 Rat 2298478 Eau8 Experimental allergic uveoretinitis QTL 8 0.0163 uvea integrity trait (VT:0010551) experimental autoimmune uveitis score (CMO:0001504) 19 17154433 57337602 Rat
RH137412
Rat Assembly Chr Position (strand) Source JBrowse mRatBN7.2 19 52,586,202 - 52,586,416 (+) MAPPER mRatBN7.2 Rnor_6.0 19 57,378,691 - 57,378,904 NCBI Rnor6.0 Rnor_5.0 19 68,084,054 - 68,084,267 UniSTS Rnor5.0 RGSC_v3.4 19 54,796,180 - 54,796,393 UniSTS RGSC3.4 RH 3.4 Map 19 721.8 UniSTS Cytogenetic Map 19 q12 UniSTS
Click on a value in the shaded box below the category label to view a detailed expression data table for that system.
alimentary part of gastrointestinal system
9
13
34
38
39
16
17
16
5
75
39
21
11
36
23
Too many to show, limit is 500. Download them if you would like to view them all.
Ensembl Acc Id:
ENSRNOT00000025357 ⟹ ENSRNOP00000025357
Type:
CODING
Position:
Rat Assembly Chr Position (strand) Source mRatBN7.2 Ensembl 19 52,549,448 - 52,586,413 (+) Ensembl Rnor_6.0 Ensembl 19 57,341,938 - 57,378,901 (+) Ensembl
RefSeq Acc Id:
NM_001271140 ⟹ NP_001258069
RefSeq Status:
VALIDATED
Type:
CODING
Position:
Rat Assembly Chr Position (strand) Source GRCr8 19 69,446,847 - 69,483,810 (+) NCBI mRatBN7.2 19 52,549,448 - 52,586,413 (+) NCBI Rnor_6.0 19 57,341,938 - 57,378,901 (+) NCBI Rnor_5.0 19 68,047,157 - 68,084,264 (+) NCBI Celera 19 51,919,286 - 51,955,889 (+) NCBI
Sequence:
TTTTCCTCTGCTAGGCTGTGGAGAAGTAGTCATGCCTTACCTGCATCGGTCCCTGAGACCCCAGCCACAGCCAGTCCCCAGGGATGCCAGGACTGTCCACTCCTCGGGCCACAGCTTTGAGCAGCTGA
hide sequence
RefSeq Acc Id:
NP_001258069 ⟸ NM_001271140
- UniProtKB:
F1LR50 (UniProtKB/Swiss-Prot), O35920 (UniProtKB/Swiss-Prot), A6KJ12 (UniProtKB/TrEMBL)
- Sequence:
MPYLHRSLRPQPQPVPRDARTVHSSGHSFEQLRQSCLQSGTLFEDADFPASNSSLFYSERPQVPFVWKRPGEIVENPEFILGGATRTDICQGELGDCWLLAAIASLTLNQKALARVVPQDQGFGSGYA
hide sequence
Ensembl Acc Id:
ENSRNOP00000025357 ⟸ ENSRNOT00000025357
RGD ID: 13701235 Promoter ID: EPDNEW_R11759 Type: single initiation site Name: Capn9_1 Description: calpain 9 SO ACC ID: SO:0000170 Source: EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/ ) Experiment Methods: Single-end sequencing. Position: Rat Assembly Chr Position (strand) Source Rnor_6.0 19 57,341,934 - 57,341,994 EPDNEW
BioCyc Gene G2FUF-5243 BioCyc
Ensembl Genes ENSRNOG00000018480 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000025357 ENTREZGENE
ENSRNOT00000025357.8 UniProtKB/Swiss-Prot
Gene3D-CATH 2.60.120.380 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Cysteine proteinases UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
EF-hand UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro C2_III UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Calpain_cysteine_protease UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Calpain_domain_III UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Calpain_III UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Calpain_III_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
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
Papain-like_cys_pep_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pept_cys_AS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Peptidase_C2_calpain_cat UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:116694 UniProtKB/Swiss-Prot
NCBI Gene 116694 ENTREZGENE
PANTHER CALPAIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
CALPAIN-9 UniProtKB/TrEMBL, UniProtKB/Swiss-Prot
Pfam Calpain_III UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Peptidase_C2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Capn9 PhenoGen
PRINTS CALPAIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE CALPAIN_CAT UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
EF_HAND_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
EF_HAND_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
THIOL_PROTEASE_CYS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000018480 RatGTEx
SMART calpain_III UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
CysPc UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
EFh UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP Calpain large subunit, middle domain (domain III) UniProtKB/TrEMBL
Cysteine proteinases UniProtKB/TrEMBL
EF-hand UniProtKB/TrEMBL, UniProtKB/Swiss-Prot
SSF49758 UniProtKB/Swiss-Prot
SSF54001 UniProtKB/Swiss-Prot
UniProt A6KJ12 ENTREZGENE, UniProtKB/TrEMBL
CAN9_RAT UniProtKB/Swiss-Prot
F1LR50 ENTREZGENE
O35920 ENTREZGENE
UniProt Secondary F1LR50 UniProtKB/Swiss-Prot
Date
Current Symbol
Current Name
Previous Symbol
Previous Name
Description
Reference
Status
2008-09-29
Capn9
calpain 9
Capn9
calpain 9 (nCL-4)
Nomenclature updated to reflect human and mouse nomenclature
1299863 APPROVED
2002-07-09
Capn9
calpain 9 (nCL-4)
Symbol and Name updated to reflect Human and Mouse nomenclature
70877 APPROVED
