Crtap (cartilage associated protein) - Rat Genome Database

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Gene: Crtap (cartilage associated protein) Mus musculus
Analyze
Symbol: Crtap
Name: cartilage associated protein
RGD ID: 1320246
MGI Page MGI
Description: Predicted to contribute to collagen binding activity. Involved in spermatogenesis. Located in endoplasmic reticulum. Is expressed in several structures, including dermis; genitourinary system; heart; rib; and stomach. Used to study osteogenesis imperfecta type 7. Human ortholog(s) of this gene implicated in osteogenesis imperfecta type 7. Orthologous to human CRTAP (cartilage associated protein).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: 5730529N23Rik; C; cartilage-associated protein; CASP; Lep; Leprel3; P3h; P3h5
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm399114,204,204 - 114,219,743 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl9114,204,202 - 114,219,743 (-)EnsemblGRCm39 Ensembl
GRCm389114,375,131 - 114,390,712 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl9114,375,134 - 114,390,675 (-)EnsemblGRCm38mm10GRCm38
MGSCv379114,284,249 - 114,299,830 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv369114,223,836 - 114,239,368 (-)NCBIMGSCv36mm8
Celera9114,846,559 - 114,862,195 (-)NCBICelera
Cytogenetic Map9F3NCBI
cM Map964.39NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-demecolcine  (ISO)
(1->4)-beta-D-glucan  (EXP)
1,2-dimethylhydrazine  (EXP)
1-naphthyl isothiocyanate  (ISO)
17alpha-ethynylestradiol  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2-methylcholine  (ISO)
3-chloropropane-1,2-diol  (ISO)
4,4'-diaminodiphenylmethane  (ISO)
4,4'-sulfonyldiphenol  (EXP,ISO)
4-hydroxyphenyl retinamide  (EXP)
6-propyl-2-thiouracil  (ISO)
acrylamide  (ISO)
aflatoxin B1  (ISO)
Aflatoxin B2 alpha  (ISO)
all-trans-retinoic acid  (EXP,ISO)
amitrole  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
benzatropine  (ISO)
benzo[a]pyrene  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (EXP,ISO)
butanal  (ISO)
carbon nanotube  (ISO)
chlorpyrifos  (EXP)
cisplatin  (ISO)
copper atom  (EXP)
copper(0)  (EXP)
copper(II) sulfate  (ISO)
Cuprizon  (ISO)
cytarabine  (ISO)
dextran sulfate  (EXP)
dorsomorphin  (ISO)
doxorubicin  (ISO)
endosulfan  (ISO)
fenamidone  (EXP)
fenpyroximate  (ISO)
folic acid  (EXP)
FR900359  (ISO)
furan  (ISO)
gentamycin  (ISO)
glyphosate  (ISO)
herbicide  (ISO)
ivermectin  (ISO)
lidocaine  (ISO)
mercury dichloride  (ISO)
methimazole  (ISO)
monosodium L-glutamate  (EXP)
nickel atom  (ISO)
nitrofen  (ISO)
oxaliplatin  (ISO)
ozone  (ISO)
paracetamol  (EXP,ISO)
perfluorooctane-1-sulfonic acid  (EXP)
pirinixic acid  (EXP,ISO)
propiconazole  (ISO)
SB 431542  (ISO)
Soman  (ISO)
sulfadimethoxine  (ISO)
temozolomide  (ISO)
tetrachloromethane  (EXP,ISO)
thifluzamide  (ISO)
thioacetamide  (ISO)
titanium dioxide  (EXP)
topotecan  (ISO)
trichloroethene  (ISO)
trichostatin A  (ISO)
valproic acid  (EXP,ISO)
vincristine  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Functional annotation of a full-length mouse cDNA collection. Kawai J, etal., Nature. 2001 Feb 8;409(6821):685-90.
2. MGDs mouse GO annotations MGD data from the GO Consortium
3. Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs. Okazaki Y, etal., Nature. 2002 Dec 5;420(6915):563-73.
4. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
5. Mouse MP Annotation Import Pipeline RGD automated import 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:10349636   PMID:10429950   PMID:10702664   PMID:10922068   PMID:11042159   PMID:11076861   PMID:12477932   PMID:12904583   PMID:14581517   PMID:14610273   PMID:15782199   PMID:16141072  
PMID:16141073   PMID:16537572   PMID:17055431   PMID:18287559   PMID:19895918   PMID:20479943   PMID:20485499   PMID:21677750   PMID:21873635   PMID:24043621   PMID:24465224   PMID:24793237  
PMID:26273529   PMID:32022592   PMID:32133710   PMID:34036937  


Genomics

Comparative Map Data
Crtap
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm399114,204,204 - 114,219,743 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl9114,204,202 - 114,219,743 (-)EnsemblGRCm39 Ensembl
GRCm389114,375,131 - 114,390,712 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl9114,375,134 - 114,390,675 (-)EnsemblGRCm38mm10GRCm38
MGSCv379114,284,249 - 114,299,830 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv369114,223,836 - 114,239,368 (-)NCBIMGSCv36mm8
Celera9114,846,559 - 114,862,195 (-)NCBICelera
Cytogenetic Map9F3NCBI
cM Map964.39NCBI
CRTAP
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38333,114,014 - 33,147,773 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl333,114,014 - 33,147,773 (+)EnsemblGRCh38hg38GRCh38
GRCh37333,155,506 - 33,189,265 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36333,130,483 - 33,164,269 (+)NCBINCBI36Build 36hg18NCBI36
Build 34333,130,482 - 33,164,269NCBI
Celera333,098,553 - 33,132,585 (+)NCBICelera
Cytogenetic Map3p22.3NCBI
HuRef333,088,585 - 33,093,213 (-)NCBIHuRef
CHM1_1333,105,509 - 33,139,329 (+)NCBICHM1_1
T2T-CHM13v2.0333,115,771 - 33,149,528 (+)NCBIT2T-CHM13v2.0
Crtap
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr88122,926,117 - 122,945,843 (-)NCBIGRCr8
mRatBN7.28114,047,929 - 114,067,636 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl8114,047,933 - 114,067,631 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx8119,664,008 - 119,684,195 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.08117,863,271 - 117,883,459 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.08115,706,053 - 115,726,233 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.08122,394,451 - 122,402,198 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl8122,417,532 - 122,421,384 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.08121,719,062 - 121,734,324 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Rnor_5.08121,695,467 - 121,715,067 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.48118,765,925 - 118,773,673 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera8113,306,491 - 113,314,398 (-)NCBICelera
Cytogenetic Map8q32NCBI
Crtap
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955421384,668 - 408,214 (+)EnsemblChiLan1.0
ChiLan1.0NW_004955421384,668 - 408,214 (+)NCBIChiLan1.0ChiLan1.0
CRTAP
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2233,089,852 - 33,120,326 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1333,095,851 - 33,125,090 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0333,040,030 - 33,071,095 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1333,342,700 - 33,376,184 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl333,342,694 - 33,370,863 (+)Ensemblpanpan1.1panPan2
CRTAP
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1233,694,695 - 3,723,119 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl233,698,407 - 3,722,800 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha233,736,004 - 3,767,088 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0233,951,805 - 3,982,905 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl233,958,025 - 3,982,886 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1233,786,542 - 3,817,624 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0233,913,837 - 3,944,928 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0233,887,433 - 3,918,531 (-)NCBIUU_Cfam_GSD_1.0
Crtap
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118190,312,838 - 190,334,055 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647323,451,411 - 23,472,736 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493647323,451,394 - 23,472,645 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CRTAP
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1318,995,234 - 19,035,720 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11318,994,371 - 19,040,297 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
CRTAP
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11577,608,493 - 77,636,242 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1577,608,760 - 77,635,960 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604150,987,810 - 51,019,619 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Crtap
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462478811,130,278 - 11,153,965 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462478811,130,232 - 11,153,322 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Crtap
223 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:304
Count of miRNA genes:240
Interacting mature miRNAs:260
Transcripts:ENSMUST00000084881, ENSMUST00000151377
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 (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
4141833W10q13_mweight 10 weeks QTL 13 (mouse)Not determined63239711120191934Mouse
4141545Tailaq2_mtail length adjusted QTL 2 (mouse)Not determined63239711120191934Mouse
1357635Splq4_mspleen weight QTL 4 (mouse)Not determined963239711120191934Mouse
1302065El1_mepilepsy 1 (mouse)Not determined975682646114303447Mouse
10054492El7_mepilepsy 7 (mouse)Not determined975682646114303447Mouse
1301732Char1_mP. chabaudi malaria resistance QTL 1 (mouse)Not determined981680321115680445Mouse
10766454Char10_mP. chabaudi malaria resistance QTL 10 (mouse)982792386116792481Mouse
1300884Sluc11_msusceptibility to lung cancer 11 (mouse)Not determined982792386116792481Mouse
1357461Idd2_minsulin dependent diabetes susceptibility 2 (mouse)Not determined982792386116792481Mouse
1301487Nociq1_mnociceptive sensitivity inflammatory QTL 1 (mouse)Not determined984406017118406120Mouse
1300549Bbaa17_mB. burgdorferi-associated arthritis 17 (mouse)Not determined986107600120107729Mouse
1302103Dob2_mdietary obesity 2 (mouse)Not determined986121898120118690Mouse
11251716Siim2_mstress induced immobility 2 (mouse)986625682120625682Mouse
12880422V25Dq6_mvitamin D inactive form serum level QTL 6 (mouse)987677199121677199Mouse
10412242Alpq8_malcohol preference QTL 8 (mouse)Not determined989162124123162124Mouse
1301649Psl1_mpromotion susceptibility QTL 1 (mouse)Not determined989289476123289595Mouse
18182932Metl3_mmetabolite locus 3, N-acetylglutamate (mouse)989440541123440541Mouse
1357657Pymr_mPlasmodium yoelli malaria resistance (mouse)Not determined989859058118767089Mouse
12910770Splic1_mspleen iron content 1 (mouse)991291078124359700Mouse
12910772Lvic6_mliver iron content 6 (mouse)991291078124359700Mouse
12910773Splic3_mspleen iron content 3 (mouse)991291078124359700Mouse
1558767Skmw11_mskeletal muscle weight 11 (mouse)Not determined991518283124359700Mouse
13463474Hbbcq5_mhemoglobin concentration QTL 5 (mouse)991518283124359700Mouse
13463475Hctq7_mhematocrit QTL 7 (mouse)991518283124359700Mouse
13463477Rbc9_mred blood cell count 9 (mouse)991518283124359700Mouse
13463478Mchq18_mmean corpuscular hemoglobin QTL 18 (mouse)991518283124359700Mouse
13463480Mchcq2_mmean corpuscular hemoglobin concentration QTL 2 (mouse)991518283124359700Mouse
12904937Edlmmq9_mextensor digitorum longus muscle mass QTL 9 (mouse)991560372124359700Mouse
12904947Tammq7_mtibialis anterior muscle mass QTL 7 (mouse)991560372124359700Mouse
12904961Gmmq7_mgastrocnemius muscle mass QTL 7 (mouse)991560372124359700Mouse
1301484Bwq6_mbody weight (mouse)Not determined993591658124359700Mouse
1302001Bdln5_mbody length 5 (mouse)Not determined993591658124359700Mouse
14746992Manh67_mmandible shape 67 (mouse)993865836124359700Mouse
11537364Cnes5_mC. neoformans susceptibility locus 5 (mouse)996746658124359700Mouse
1301297Lcho1_mliver cholesterol 1 (mouse)Not determined9100889929124359700Mouse
1357648Obq18_mobesity QTL 18 (mouse)Not determined9101829255124359700Mouse
1357627Tgq2_mtriglyceride QTL 2 (mouse)Not determined9101829255124359700Mouse
10412290Pvacm1l_mplasma vascular cell adhesion molecule 1 levels (mouse)Not determined9103118511124359700Mouse
12879896Berr3_mberghei resistance locus 3 (mouse)9103118511124359700Mouse
1301789Pbwg4_mpostnatal body weight growth 4 (mouse)Not determined9103118511124359700Mouse
13515058Adip20d_madiposity 20d (mouse)9108744078118744078Mouse


Expression


Sequence


RefSeq Acc Id: ENSMUST00000084881   ⟹   ENSMUSP00000081941
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl9114,204,202 - 114,219,743 (-)Ensembl
GRCm38.p6 Ensembl9114,375,134 - 114,390,675 (-)Ensembl
RefSeq Acc Id: ENSMUST00000151377
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl9114,204,218 - 114,207,289 (-)Ensembl
GRCm38.p6 Ensembl9114,375,150 - 114,378,221 (-)Ensembl
RefSeq Acc Id: NM_019922   ⟹   NP_064306
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm399114,204,204 - 114,219,743 (-)NCBI
GRCm389114,375,131 - 114,390,712 (-)ENTREZGENE
MGSCv379114,284,249 - 114,299,830 (-)RGD
Celera9114,846,559 - 114,862,195 (-)RGD
cM Map9 ENTREZGENE
Sequence:
Protein Sequences
Protein RefSeqs NP_064306 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH49890 (Get FASTA)   NCBI Sequence Viewer  
  BAB30938 (Get FASTA)   NCBI Sequence Viewer  
  BAC33076 (Get FASTA)   NCBI Sequence Viewer  
  CAA07053 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSMUSP00000081941
  ENSMUSP00000081941.5
GenBank Protein Q9CYD3 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_064306   ⟸   NM_019922
- Peptide Label: precursor
- UniProtKB: O88698 (UniProtKB/Swiss-Prot),   Q8C8C5 (UniProtKB/Swiss-Prot),   Q9CYD3 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSMUSP00000081941   ⟸   ENSMUST00000084881

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q9CYD3-F1-model_v2 AlphaFold Q9CYD3 1-400 view protein structure

Promoters
RGD ID:6844359
Promoter ID:MM_KWN:59016
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:3T3L1_Day0,   BoneMarrow_0Hour,   BoneMarrow_2Hour,   BoneMarrow_4Hour,   Brain,   ES_Cell,   Kidney,   Lung,   Spleen
Transcripts:NM_019922
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv369114,299,481 - 114,300,652 (-)MPROMDB
RGD ID:8671108
Promoter ID:EPDNEW_M13584
Type:initiation region
Name:Crtap_1
Description:Mus musculus cartilage associated protein , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm389114,390,667 - 114,390,727EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1891221 AgrOrtholog
Ensembl Genes ENSMUSG00000032431 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000084881 ENTREZGENE
  ENSMUST00000084881.5 UniProtKB/Swiss-Prot
Gene3D-CATH 1.25.40.10 UniProtKB/Swiss-Prot
InterPro TPR-like_helical_dom_sf UniProtKB/Swiss-Prot
KEGG Report mmu:56693 UniProtKB/Swiss-Prot
MGD MGI:1891221 ENTREZGENE
NCBI Gene 56693 ENTREZGENE
PANTHER PROTEIN LYSINE HYDROXYLATION COMPLEX COMPONENT UniProtKB/Swiss-Prot
  PTHR13986:SF3 UniProtKB/Swiss-Prot
PhenoGen Crtap PhenoGen
UniProt CRTAP_MOUSE UniProtKB/Swiss-Prot
  O88698 ENTREZGENE
  Q8C8C5 ENTREZGENE
  Q9CYD3 ENTREZGENE
UniProt Secondary O88698 UniProtKB/Swiss-Prot
  Q8C8C5 UniProtKB/Swiss-Prot