Card9 (caspase recruitment domain family, member 9) - Rat Genome Database

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Gene: Card9 (caspase recruitment domain family, member 9) Rattus norvegicus
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Symbol: Card9
Name: caspase recruitment domain family, member 9
RGD ID: 708370
Description: Enables protein domain specific binding activity. Involved in I-kappaB kinase/NF-kappaB signaling. Predicted to be part of CBM complex. Predicted to be active in cytoplasm. Human ortholog(s) of this gene implicated in primary immunodeficiency disease. Orthologous to human CARD9 (caspase recruitment domain family member 9); PARTICIPATES IN NOD-like receptor signaling pathway; tuberculosis pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 6-propyl-2-thiouracil; acetamide.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: caspase recruitment domain protein 9; caspase recruitment domain-containing protein 9; LOC64171; rCARD9
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
mRatBN7.239,171,814 - 9,180,310 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl39,171,815 - 9,180,237 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx312,225,191 - 12,233,701 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0320,808,421 - 20,816,931 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0319,063,758 - 19,072,269 (-)NCBIRnor_WKY
Rnor_6.033,798,346 - 3,806,841 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl33,798,347 - 3,806,713 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.039,159,493 - 9,169,133 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.434,524,781 - 4,533,412 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.134,524,781 - 4,533,412 (-)NCBI
Celera33,991,729 - 4,000,095 (-)NCBICelera
Cytogenetic Map3p13NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
antifungal innate immune response  (ISO,ISS)
defense response to Gram-positive bacterium  (ISO)
defense response to virus  (ISO)
host-mediated regulation of intestinal microbiota composition  (ISO,ISS)
I-kappaB kinase/NF-kappaB signaling  (IMP)
immunoglobulin mediated immune response  (ISO,ISS)
JNK cascade  (ISO)
neutrophil mediated immunity  (ISO,ISS)
positive regulation of chemokine production  (ISO)
positive regulation of cysteine-type endopeptidase activity involved in apoptotic process  (ISO)
positive regulation of cytokine production  (ISO,ISS)
positive regulation of cytokine production involved in inflammatory response  (ISO,ISS)
positive regulation of ERK1 and ERK2 cascade  (ISO,ISS)
positive regulation of granulocyte macrophage colony-stimulating factor production  (ISO,ISS)
positive regulation of I-kappaB kinase/NF-kappaB signaling  (IBA,ISO)
positive regulation of innate immune response  (ISO)
positive regulation of interleukin-17 production  (ISO,ISS)
positive regulation of interleukin-6 production  (ISO,ISS)
positive regulation of JNK cascade  (ISO)
positive regulation of macrophage cytokine production  (ISO)
positive regulation of NF-kappaB transcription factor activity  (ISO,ISS)
positive regulation of stress-activated MAPK cascade  (ISO,ISS)
positive regulation of T-helper 17 type immune response  (ISO)
positive regulation of tumor necrosis factor production  (ISO)
protein homooligomerization  (ISO,ISS)
regulation of apoptotic process  (IEA)
regulation of interleukin-2 production  (ISO)
regulation of interleukin-6 production  (ISO)
regulation of tumor necrosis factor production  (ISO)
response to exogenous dsRNA  (ISO)
response to fungus  (ISO)
response to muramyl dipeptide  (ISO)
response to peptidoglycan  (ISO)
response to xenobiotic stimulus  (ISO)
stress-activated MAPK cascade  (ISO)

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. CARD9 is a novel caspase recruitment domain-containing protein that interacts with BCL10/CLAP and activates NF-kappa B. Bertin J, etal., J Biol Chem 2000 Dec 29;275(52):41082-6.
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. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
4. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
5. GOA pipeline RGD automated data pipeline
6. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
7. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:16862125   PMID:17187069   PMID:22267217   PMID:27957800   PMID:31212066   PMID:32248306   PMID:32790017  


Genomics

Comparative Map Data
Card9
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.239,171,814 - 9,180,310 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl39,171,815 - 9,180,237 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx312,225,191 - 12,233,701 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0320,808,421 - 20,816,931 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0319,063,758 - 19,072,269 (-)NCBIRnor_WKY
Rnor_6.033,798,346 - 3,806,841 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl33,798,347 - 3,806,713 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.039,159,493 - 9,169,133 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.434,524,781 - 4,533,412 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.134,524,781 - 4,533,412 (-)NCBI
Celera33,991,729 - 4,000,095 (-)NCBICelera
Cytogenetic Map3p13NCBI
CARD9
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh389136,363,956 - 136,373,669 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl9136,363,956 - 136,373,681 (-)EnsemblGRCh38hg38GRCh38
GRCh379139,258,408 - 139,268,121 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 369138,378,229 - 138,387,939 (-)NCBINCBI36Build 36hg18NCBI36
Build 349136,534,245 - 136,543,945NCBI
Celera9109,773,344 - 109,783,069 (-)NCBICelera
Cytogenetic Map9q34.3NCBI
HuRef9108,717,764 - 108,727,489 (-)NCBIHuRef
CHM1_19139,406,604 - 139,416,329 (-)NCBICHM1_1
T2T-CHM13v2.09148,593,287 - 148,603,003 (-)NCBIT2T-CHM13v2.0
Card9
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39226,242,199 - 26,250,957 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl226,242,188 - 26,250,930 (-)EnsemblGRCm39 Ensembl
GRCm38226,352,187 - 26,360,945 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl226,352,176 - 26,360,918 (-)EnsemblGRCm38mm10GRCm38
MGSCv37226,207,832 - 26,215,067 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36226,174,196 - 26,181,556 (-)NCBIMGSCv36mm8
Celera226,070,008 - 26,077,188 (-)NCBICelera
Cytogenetic Map2A3NCBI
Card9
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555134,350,147 - 4,359,345 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049555134,350,873 - 4,359,345 (+)NCBIChiLan1.0ChiLan1.0
CARD9
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.19136,416,279 - 136,426,048 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl9136,416,279 - 136,424,756 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v09107,432,709 - 107,446,271 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
CARD9
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1949,110,913 - 49,120,758 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl949,113,923 - 49,120,591 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha948,361,817 - 48,371,360 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0949,987,891 - 49,997,435 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl949,990,618 - 49,997,434 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1948,768,457 - 48,777,984 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0949,062,612 - 49,072,157 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0949,110,140 - 49,119,684 (+)NCBIUU_Cfam_GSD_1.0
Card9
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404947201,937,046 - 201,946,896 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366691,429,594 - 1,438,005 (+)EnsemblSpeTri2.0
SpeTri2.0NW_0049366691,428,208 - 1,438,012 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CARD9
(Sus scrofa - pig)
No map positions available.
CARD9
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1121,829,913 - 1,841,489 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl121,832,989 - 1,837,914 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660583,374,636 - 3,386,427 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Card9
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247601,533,390 - 1,540,162 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247601,533,247 - 1,542,529 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Card9
21 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:50
Count of miRNA genes:43
Interacting mature miRNAs:50
Transcripts:ENSRNOT00000025456
Prediction methods: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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
70202Alc19Alcohol consumption QTL 192.5drinking behavior trait (VT:0001422)ethanol intake volume to total fluid intake volume ratio (CMO:0001591)3127494778Rat
631679Cm10Cardiac mass QTL 107.340.0001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)3131158234Rat
631831Alc8Alcohol consumption QTL 82.7consumption behavior trait (VT:0002069)calculated ethanol drink intake rate (CMO:0001615)3133230976Rat
61468Bp15Blood pressure QTL 154.4blood pressure trait (VT:0000183)diastolic blood pressure (CMO:0000005)3133278763Rat
61468Bp15Blood pressure QTL 154.4blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)3133278763Rat
61468Bp15Blood pressure QTL 154.4blood pressure trait (VT:0000183)pulse pressure (CMO:0000292)3133278763Rat
631545Bp85Blood pressure QTL 853.1arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3133278763Rat
4889966Bss95Bone structure and strength QTL 954.4tibia area (VT:1000281)tibia-fibula cross-sectional area (CMO:0001718)3136847613Rat
2312664Scl62Serum cholesterol level QTL 620.05blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)3138710544Rat
631568Bp92Blood pressure QTL 922.20.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3139874793Rat
2290452Scl56Serum cholesterol level QTL 562.26blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)3191609953Rat
1358185Ept6Estrogen-induced pituitary tumorigenesis QTL 66.7pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)3653764510778823Rat
2292615Ept17Estrogen-induced pituitary tumorigenesis QTL 176.7pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)3653764510778823Rat
1298526Arunc3Aerobic running capacity QTL 32.2exercise endurance trait (VT:0002332)maximum distance run on treadmill (CMO:0001406)3822719433703538Rat
10401810Kidm53Kidney mass QTL 53kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)3822719447233430Rat
70203Gcr2Gastric cancer resistance QTL 22.6stomach morphology trait (VT:0000470)stomach tumor susceptibility score (CMO:0002043)3865816227494778Rat
1358357Srcrtb1Stress Responsive Cort Basal QTL 16.360.002blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)3865816227494778Rat


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 2 1
Low 3 41 57 41 16 41 8 11 74 35 39 10 8
Below cutoff 2

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000091484   ⟹   ENSRNOP00000074450
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl39,171,815 - 9,180,237 (-)Ensembl
Rnor_6.0 Ensembl33,798,347 - 3,806,713 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000095848   ⟹   ENSRNOP00000086525
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl39,171,815 - 9,180,237 (-)Ensembl
RefSeq Acc Id: NM_022303   ⟹   NP_071639
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.239,171,814 - 9,180,310 (-)NCBI
Rnor_6.033,798,346 - 3,806,713 (-)NCBI
Rnor_5.039,159,493 - 9,169,133 (-)NCBI
RGSC_v3.434,524,781 - 4,533,412 (-)RGD
Celera33,991,729 - 4,000,095 (-)RGD
Sequence:
RefSeq Acc Id: XM_039105786   ⟹   XP_038961714
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.239,173,864 - 9,180,256 (-)NCBI
RefSeq Acc Id: XR_005501976
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.239,172,178 - 9,180,256 (-)NCBI
RefSeq Acc Id: XR_005501977
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.239,171,814 - 9,180,255 (-)NCBI
RefSeq Acc Id: XR_005501978
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.239,174,006 - 9,180,255 (-)NCBI
Protein Sequences
Protein RefSeqs NP_071639 (Get FASTA)   NCBI Sequence Viewer  
  XP_038961714 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAG28791 (Get FASTA)   NCBI Sequence Viewer  
  EDL93509 (Get FASTA)   NCBI Sequence Viewer  
  Q9EPY0 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_071639   ⟸   NM_022303
- UniProtKB: F1LQK8 (UniProtKB/Swiss-Prot),   Q9EPY0 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000074450   ⟸   ENSRNOT00000091484
RefSeq Acc Id: XP_038961714   ⟸   XM_039105786
- Peptide Label: isoform X1
RefSeq Acc Id: ENSRNOP00000086525   ⟸   ENSRNOT00000095848
Protein Domains
CARD

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q9EPY0-F1-model_v2 AlphaFold Q9EPY0 1-536 view protein structure

Transcriptome

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

Promoters
RGD ID:13691902
Promoter ID:EPDNEW_R2427
Type:initiation region
Name:Card9_1
Description:caspase recruitment domain family, member 9
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_6.033,806,703 - 3,806,763EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:708370 AgrOrtholog
BioCyc Gene G2FUF-50386 BioCyc
Ensembl Genes ENSRNOG00000018791 ENTREZGENE
  ENSRNOG00000051470 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000074450 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000086525.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000025386 ENTREZGENE
  ENSRNOT00000091484 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000095848.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.533.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro CARD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  CARD_CARD9 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  DEATH-like_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:64171 UniProtKB/Swiss-Prot
NCBI Gene 64171 ENTREZGENE
Pfam CARD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Card9 PhenoGen
PROSITE CARD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF47986 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A8I6A3T6_RAT UniProtKB/TrEMBL
  CARD9_RAT UniProtKB/Swiss-Prot
  F1LQK8 ENTREZGENE
  Q9EPY0 ENTREZGENE
UniProt Secondary F1LQK8 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2005-07-08 Card9  caspase recruitment domain family, member 9  LOC64171  caspase recruitment domain protein 9  Symbol and Name updated 1299863 APPROVED