Spock3 (sparc/osteonectin, cwcv and kazal-like domains proteoglycan 3) - Rat Genome Database
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Gene: Spock3 (sparc/osteonectin, cwcv and kazal-like domains proteoglycan 3) Mus musculus
Analyze
Symbol: Spock3
Name: sparc/osteonectin, cwcv and kazal-like domains proteoglycan 3
RGD ID: 1313841
MGI Page MGI
Description: Exhibits glycosaminoglycan binding activity. Involved in peptide cross-linking via chondroitin 4-sulfate glycosaminoglycan. Predicted to localize to extracellular matrix and extracellular space. Is expressed in central nervous system and retina. Orthologous to human SPOCK3 (SPARC (osteonectin), cwcv and kazal like domains proteoglycan 3); INTERACTS WITH 1,2-dichloroethane; 2,2',4,4',5,5'-hexachlorobiphenyl; 2,2',5,5'-tetrachlorobiphenyl.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: 2900045C01Rik; AI428471; KIAA4039; mKIAA4039; testican 3; testican-3
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm38 - Mouse Genome Assembly GRCm38
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39863,404,034 - 63,810,135 (+)NCBIGRCm39mm39
GRCm38862,951,000 - 63,357,101 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl862,951,009 - 63,357,103 (+)EnsemblGRCm38mm10GRCm38
MGSCv37865,430,243 - 65,835,895 (+)NCBIGRCm37mm9NCBIm37
MGSCv36865,843,638 - 66,249,290 (+)NCBImm8
Celera865,512,708 - 65,916,870 (+)NCBICelera
Cytogenetic Map8B3.1NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
References

Additional References at PubMed
PMID:10349636   PMID:11042159   PMID:11076861   PMID:12477932   PMID:14610273   PMID:15489334   PMID:16141072   PMID:16141073   PMID:16537572   PMID:16602821   PMID:17131200   PMID:18757743  
PMID:19554387   PMID:21873635   PMID:23418755   PMID:25138526  


Genomics

Comparative Map Data
Spock3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39863,404,034 - 63,810,135 (+)NCBIGRCm39mm39
GRCm38862,951,000 - 63,357,101 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl862,951,009 - 63,357,103 (+)EnsemblGRCm38mm10GRCm38
MGSCv37865,430,243 - 65,835,895 (+)NCBIGRCm37mm9NCBIm37
MGSCv36865,843,638 - 66,249,290 (+)NCBImm8
Celera865,512,708 - 65,916,870 (+)NCBICelera
Cytogenetic Map8B3.1NCBI
SPOCK3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl4166,733,384 - 167,234,796 (-)EnsemblGRCh38hg38GRCh38
GRCh384166,733,384 - 167,234,869 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh374167,654,535 - 168,155,741 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 364167,891,110 - 168,392,316 (-)NCBINCBI36hg18NCBI36
Build 344168,030,065 - 168,530,435NCBI
Celera4164,991,472 - 165,486,546 (-)NCBI
Cytogenetic Map4q32.3NCBI
HuRef4163,410,545 - 163,907,393 (-)NCBIHuRef
CHM1_14167,631,151 - 168,132,191 (-)NCBICHM1_1
Spock3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.01628,372,067 - 28,716,762 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1628,372,411 - 28,716,885 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01628,243,878 - 28,508,371 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Rnor_5.01628,585,376 - 28,585,974 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41629,337,211 - 29,751,950 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11629,338,682 - 29,751,934 (-)NCBI
Celera1626,444,211 - 26,865,494 (-)NCBICelera
Cytogenetic Map16p13NCBI
Spock3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540338,476,182 - 38,873,299 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495540338,476,251 - 38,870,760 (+)NCBIChiLan1.0ChiLan1.0
SPOCK3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.14171,022,442 - 171,517,007 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl4171,022,442 - 171,517,005 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v04158,941,142 - 159,437,078 (-)NCBIMhudiblu_PPA_v0panPan3
SPOCK3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl1562,395,707 - 62,661,312 (-)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.11562,395,713 - 62,661,308 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
LOC101976708
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_004936851316,979 - 443,444 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SPOCK3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1421,754,463 - 22,121,051 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11421,754,419 - 22,121,051 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21423,434,435 - 23,504,836 (+)NCBISscrofa10.2Sscrofa10.2susScr3
SPOCK3
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.17113,040,250 - 113,531,535 (-)NCBI
Spock3
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_004624932243,415 - 628,331 (-)NCBI

Position Markers
AI428471  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38863,356,621 - 63,356,735UniSTSGRCm38
MGSCv37865,835,418 - 65,835,532UniSTSGRCm37
Celera865,916,392 - 65,916,506UniSTS
Cytogenetic Map8B3.1UniSTS
Whitehead/MRC_RH8694.12UniSTS
D8Dcr26  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38863,091,976 - 63,092,076UniSTSGRCm38
MGSCv37865,570,773 - 65,570,873UniSTSGRCm37
Celera865,645,900 - 65,646,000UniSTS
Cytogenetic Map8B3.1UniSTS
cM Map8 UniSTS
D8Mit367  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38863,268,412 - 63,268,508UniSTSGRCm38
MGSCv37865,747,209 - 65,747,305UniSTSGRCm37
Celera865,828,758 - 65,828,854UniSTS
Cytogenetic Map8B3.1UniSTS
cM Map833.0UniSTS


QTLs in Region (GRCm38)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1558870Eae36_mexperimental allergic encephalomyelitis susceptibility 36 (mouse)Not determined81472316071045600Mouse
1357811Orq3_movulation rate QTL 3 (mouse)Not determined83201654471287993Mouse
4141437W10q14_mweight 10 weeks QTL 14 (mouse)Not determined3201654471287993Mouse
4141172W6q9_mweight 6 weeks QTL 9 (mouse)Not determined3201654471287993Mouse
4140966Egq12_mearly growth QTL 12 (mouse)Not determined3201654471287993Mouse
4140967Bmd39_mbone mineral density 39 (mouse)Not determined832016544117238700Mouse
1301936Trigq2_mtriglyceride QTL 2 (mouse)Not determined83383736267837502Mouse
1558875Eae31_mexperimental allergic encephalomyelitis susceptibility 31 (mouse)Not determined834642776114837007Mouse
1301013Capsq4_mcapsaicin sensitivity related QTL 4 (mouse)Not determined83616300092728652Mouse
27226754Femd6_mfemur midshaft diameter 6, 10 week (mouse)837400000109600000Mouse
12904744Carcdq1_mcardiac collagen deposition QTL 1 (mouse)83970925694689598Mouse
1301544Iba3_minduction of brown adipocytes 3 (mouse)Not determined84429488078295025Mouse
1301717Adip4_madiposity 4 (mouse)Not determined84763703081637146Mouse
10766453Char11_mP. chabaudi malaria resistance QTL 11 (mouse)84763703081637146Mouse
1301441Skull11_mskull morphology 11 (mouse)Not determined84773713481737254Mouse
1357715Alaa3_malopecia areata 3 (mouse)Not determined84879293982793021Mouse
14746987Manh64_mmandible shape 64 (mouse)85005330684053306Mouse
14747005Mancz7_mmandible centroid size 7 (mouse)85005330684053306Mouse
14700686Civq3_mcerebral infarct volume QTL 3 (mouse)85188219185882191Mouse
1301506Aevm1_mautoimmune extremity vasculitis in MRL mice 1 (mouse)Not determined85428781788287993Mouse
1301952Im3_mimmunoregulatory 3 (mouse)Not determined85470661488706763Mouse
10412287Carg3_mCandida albicans resistance gene 3 (mouse)Not determined85554502889545028Mouse
11353828Gf7_mgonadal fat pad weight 7 (mouse)85820147992201479Mouse
10043975Obq31_mobesity QTL 31 (mouse)Not determined85840977692409776Mouse
1301688Orch6_mautoimmune orchitis resistance 6 (mouse)Not determined86078685094786976Mouse

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:1835
Count of miRNA genes:367
Interacting mature miRNAs:431
Transcripts:ENSMUST00000093480, ENSMUST00000117377, ENSMUST00000118003, ENSMUST00000119068, ENSMUST00000138398, ENSMUST00000141513
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.


Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001252620 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001252621 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001361918 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_023689 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006509516 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006509517 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC122404 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC122455 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC132473 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AJ278998 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK013644 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK049843 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK140736 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK164338 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK220280 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC017601 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC053334 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH466569 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSMUST00000093480   ⟹   ENSMUSP00000091192
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl862,951,800 - 63,357,094 (+)Ensembl
RefSeq Acc Id: ENSMUST00000117377   ⟹   ENSMUSP00000113797
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl862,951,009 - 63,356,852 (+)Ensembl
RefSeq Acc Id: ENSMUST00000118003   ⟹   ENSMUSP00000113683
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl862,951,232 - 63,356,860 (+)Ensembl
RefSeq Acc Id: ENSMUST00000119068   ⟹   ENSMUSP00000112930
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl862,951,361 - 63,357,103 (+)Ensembl
RefSeq Acc Id: ENSMUST00000138398
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl862,951,361 - 63,152,865 (+)Ensembl
RefSeq Acc Id: ENSMUST00000141513
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl862,951,925 - 62,967,287 (+)Ensembl
RefSeq Acc Id: NM_001252620   ⟹   NP_001239549
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39863,404,266 - 63,810,132 (+)NCBI
GRCm38862,951,232 - 63,357,098 (+)NCBI
Celera865,512,492 - 65,916,870 (+)ENTREZGENE
cM Map8 ENTREZGENE
Sequence:
RefSeq Acc Id: NM_001252621   ⟹   NP_001239550
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39863,404,266 - 63,810,132 (+)NCBI
GRCm38862,951,232 - 63,357,098 (+)NCBI
Celera865,512,492 - 65,916,870 (+)ENTREZGENE
cM Map8 ENTREZGENE
Sequence:
RefSeq Acc Id: NM_001361918   ⟹   NP_001348847
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39863,404,379 - 63,810,132 (+)NCBI
GRCm38862,951,345 - 63,357,098 (+)NCBI
Sequence:
RefSeq Acc Id: NM_023689   ⟹   NP_076178
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39863,404,379 - 63,810,132 (+)NCBI
GRCm38862,951,345 - 63,357,098 (+)NCBI
MGSCv37865,430,243 - 65,835,895 (+)RGD
Celera865,512,492 - 65,916,870 (+)ENTREZGENE
cM Map8 ENTREZGENE
Sequence:
RefSeq Acc Id: XM_006509516   ⟹   XP_006509579
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39863,404,036 - 63,810,135 (+)NCBI
GRCm38862,951,091 - 63,357,101 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006509517   ⟹   XP_006509580
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39863,404,034 - 63,810,135 (+)NCBI
GRCm38862,951,000 - 63,357,101 (+)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_076178   ⟸   NM_023689
- Peptide Label: isoform 1 precursor
- UniProtKB: Q8BKV0 (UniProtKB/Swiss-Prot),   Q571A9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001239549   ⟸   NM_001252620
- Peptide Label: isoform 1 precursor
- UniProtKB: Q8BKV0 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: NP_001239550   ⟸   NM_001252621
- Peptide Label: isoform 2 precursor
- UniProtKB: Q8BKV0 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006509579   ⟸   XM_006509516
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006509580   ⟸   XM_006509517
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: NP_001348847   ⟸   NM_001361918
- Peptide Label: isoform 2 precursor
RefSeq Acc Id: ENSMUSP00000112930   ⟸   ENSMUST00000119068
RefSeq Acc Id: ENSMUSP00000113683   ⟸   ENSMUST00000118003
RefSeq Acc Id: ENSMUSP00000091192   ⟸   ENSMUST00000093480
RefSeq Acc Id: ENSMUSP00000113797   ⟸   ENSMUST00000117377
Protein Domains
Kazal-like   Thyroglobulin type-1

Promoters
RGD ID:8667163
Promoter ID:EPDNEW_M11613
Type:initiation region
Name:Spock3_1
Description:Mus musculus sparc/osteonectin, cwcv and kazal-like domains proteoglycan3 , transcript variant 4, 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
GRCm38862,951,417 - 62,951,477EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1920152 AgrOrtholog
Ensembl Genes ENSMUSG00000054162 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSMUSP00000091192 UniProtKB/Swiss-Prot
  ENSMUSP00000112930 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSMUSP00000113683 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSMUSP00000113797 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000093480 UniProtKB/Swiss-Prot
  ENSMUST00000117377 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSMUST00000118003 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSMUST00000119068 ENTREZGENE, UniProtKB/Swiss-Prot
Gene3D-CATH 4.10.800.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro EF-hand-dom_pair UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Kazal_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Kazal_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SPARC/Testican_Ca-bd-dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Thyroglobulin_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Thyroglobulin_1_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:72902 UniProtKB/Swiss-Prot
MGD MGI:1920152 ENTREZGENE
NCBI Gene 72902 ENTREZGENE
Pfam Kazal_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SPARC_Ca_bdg UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Thyroglobulin_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Spock3 PhenoGen
PROSITE KAZAL_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  THYROGLOBULIN_1_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  THYROGLOBULIN_1_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART KAZAL UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SM00211 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF100895 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF47473 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF57610 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniGene Mm.334552 ENTREZGENE
UniProt Q3TPI9_MOUSE UniProtKB/TrEMBL
  Q3US75_MOUSE UniProtKB/TrEMBL
  Q571A9 ENTREZGENE, UniProtKB/TrEMBL
  Q8BKV0 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary Q9ER59 UniProtKB/Swiss-Prot