Srpx2 (sushi-repeat-containing protein, X-linked 2) - Rat Genome Database

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Gene: Srpx2 (sushi-repeat-containing protein, X-linked 2) Rattus norvegicus
Analyze
Symbol: Srpx2
Name: sushi-repeat-containing protein, X-linked 2
RGD ID: 1562444
Description: Predicted to enable hepatocyte growth factor binding activity; identical protein binding activity; and signaling receptor binding activity. Involved in positive regulation of synapse assembly. Located in cell surface; excitatory synapse; and synaptic membrane. Orthologous to human SRPX2 (sushi repeat containing protein X-linked 2); INTERACTS WITH 1-naphthyl isothiocyanate; 6-propyl-2-thiouracil; amitrole.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: LOC317181; RGD1562444; similar to Sushi-repeat containing protein; sushi repeat-containing protein SRPX2
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
GRCr8X101,399,748 - 101,425,486 (+)NCBIGRCr8
mRatBN7.2X97,106,455 - 97,132,197 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX97,106,561 - 97,132,195 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_UtxX98,780,980 - 98,806,337 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X102,290,762 - 102,316,123 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X99,794,158 - 99,819,519 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X104,734,035 - 104,760,658 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX104,734,082 - 104,760,547 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X104,569,972 - 104,594,902 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X121,446,756 - 121,468,691 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
CeleraX98,154,669 - 98,178,553 (+)NCBICelera
Cytogenetic MapXq32NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
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. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
3. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
5. The human language-associated gene SRPX2 regulates synapse formation and vocalization in mice. Sia GM, etal., Science. 2013 Nov 22;342(6161):987-91. doi: 10.1126/science.1245079. Epub 2013 Oct 31.
Additional References at PubMed
PMID:9864177   PMID:12477932   PMID:18718938   PMID:19065654   PMID:19667118   PMID:22242148   PMID:24006456   PMID:31650880  


Genomics

Comparative Map Data
Srpx2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X101,399,748 - 101,425,486 (+)NCBIGRCr8
mRatBN7.2X97,106,455 - 97,132,197 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX97,106,561 - 97,132,195 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_UtxX98,780,980 - 98,806,337 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X102,290,762 - 102,316,123 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X99,794,158 - 99,819,519 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X104,734,035 - 104,760,658 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX104,734,082 - 104,760,547 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X104,569,972 - 104,594,902 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X121,446,756 - 121,468,691 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
CeleraX98,154,669 - 98,178,553 (+)NCBICelera
Cytogenetic MapXq32NCBI
SRPX2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38X100,644,199 - 100,675,788 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 EnsemblX100,644,195 - 100,675,788 (+)EnsemblGRCh38hg38GRCh38
GRCh37X99,899,196 - 99,930,785 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36X99,785,819 - 99,812,952 (+)NCBINCBI36Build 36hg18NCBI36
Build 34X99,705,369 - 99,732,435NCBI
CeleraX100,417,899 - 100,445,036 (+)NCBICelera
Cytogenetic MapXq22.1NCBI
HuRefX89,699,083 - 89,726,241 (+)NCBIHuRef
CHM1_1X99,792,044 - 99,819,192 (+)NCBICHM1_1
T2T-CHM13v2.0X99,086,631 - 99,118,247 (+)NCBIT2T-CHM13v2.0
Srpx2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X132,809,155 - 132,833,195 (+)NCBIGRCm39GRCm39mm39
GRCm39 EnsemblX132,809,175 - 132,833,195 (+)EnsemblGRCm39 Ensembl
GRCm38X133,908,416 - 133,932,448 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX133,908,426 - 133,932,446 (+)EnsemblGRCm38mm10GRCm38
MGSCv37X130,442,965 - 130,467,001 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36X129,255,046 - 129,278,164 (+)NCBIMGSCv36mm8
CeleraX116,784,471 - 116,808,449 (+)NCBICelera
Cytogenetic MapXE3NCBI
cM MapX55.47NCBI
Srpx2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555036,795,734 - 6,821,119 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049555036,795,793 - 6,817,779 (+)NCBIChiLan1.0ChiLan1.0
SRPX2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2X100,248,125 - 100,279,048 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1X100,253,972 - 100,285,692 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0X89,854,389 - 89,886,776 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1X99,994,560 - 100,021,241 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 EnsemblX99,994,560 - 100,021,241 (+)Ensemblpanpan1.1panPan2
SRPX2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1X74,513,473 - 74,536,446 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 EnsemblX74,513,774 - 74,534,910 (+)EnsemblCanFam3.1canFam3CanFam3.1
ROS_Cfam_1.0X75,923,141 - 75,944,851 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 EnsemblX75,922,966 - 75,944,592 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1X73,485,604 - 73,507,297 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0X75,155,899 - 75,177,590 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0X74,916,918 - 74,938,615 (+)NCBIUU_Cfam_GSD_1.0
Srpx2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2X63,671,204 - 63,697,221 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365845,855,818 - 5,880,259 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365845,855,818 - 5,879,478 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SRPX2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 EnsemblX82,336,744 - 82,363,867 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1X82,336,741 - 82,363,868 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2X90,178,156 - 90,205,276 (+)NCBISscrofa10.2Sscrofa10.2susScr3
SRPX2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1X88,954,310 - 88,982,608 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 EnsemblX88,957,316 - 88,982,305 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366606513,884,531 - 13,916,219 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Srpx2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046249021,944,019 - 1,964,983 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046249021,944,073 - 1,967,106 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Srpx2
98 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:114
Count of miRNA genes:91
Interacting mature miRNAs:94
Transcripts:ENSRNOT00000005020
Prediction methods:Microtar, Miranda, Pita, 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
61430Cia18Collagen induced arthritis QTL 183.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)X14843113120568734Rat
1598837Memor13Memory QTL 133.2exploratory behavior trait (VT:0010471)difference between time of physical contact/close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X41052407146860749Rat
738035Stresp1Stress response QTL 14.960.000011stress-related behavior trait (VT:0010451)defensive burying - copingX41304447112935181Rat
61431Cia19Collagen induced arthritis QTL 194.4joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)X65612192120568734Rat
724551Glom1Glomerulus QTL 12.80.0004kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)X75294106120294106Rat
1598872Memor14Memory QTL 144.5exploratory behavior trait (VT:0010471)difference between time of physical contact/close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X93956491138956491Rat

Markers in Region
RH135098  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2X97,131,875 - 97,132,089 (+)MAPPERmRatBN7.2
Rnor_6.0X104,760,337 - 104,760,550NCBIRnor6.0
Rnor_5.0X104,594,581 - 104,594,794UniSTSRnor5.0
RGSC_v3.4X121,468,370 - 121,468,583UniSTSRGSC3.4
CeleraX98,178,232 - 98,178,445UniSTS
Cytogenetic MapXq34UniSTS


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 14 1 1 18 11 1
Low 3 29 28 13 18 13 7 10 44 35 16 7
Below cutoff 29 28 1 28 26 7

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000005020   ⟹   ENSRNOP00000005020
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX97,106,617 - 97,132,073 (+)Ensembl
Rnor_6.0 EnsemblX104,734,082 - 104,760,547 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000103433   ⟹   ENSRNOP00000085502
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX97,106,561 - 97,132,195 (+)Ensembl
RefSeq Acc Id: NM_001108243   ⟹   NP_001101713
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X101,400,123 - 101,425,486 (+)NCBI
mRatBN7.2X97,106,831 - 97,132,197 (+)NCBI
Rnor_6.0X104,734,368 - 104,760,658 (+)NCBI
Rnor_5.0X104,569,972 - 104,594,902 (+)NCBI
RGSC_v3.4X121,446,756 - 121,468,691 (+)RGD
CeleraX98,154,669 - 98,178,553 (+)RGD
Sequence:
RefSeq Acc Id: XM_039099717   ⟹   XP_038955645
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X101,399,754 - 101,425,486 (+)NCBI
mRatBN7.2X97,106,461 - 97,132,197 (+)NCBI
RefSeq Acc Id: XM_039099719   ⟹   XP_038955647
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X101,399,754 - 101,425,486 (+)NCBI
mRatBN7.2X97,106,461 - 97,132,197 (+)NCBI
RefSeq Acc Id: XM_039099720   ⟹   XP_038955648
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X101,399,748 - 101,425,486 (+)NCBI
mRatBN7.2X97,106,455 - 97,132,197 (+)NCBI
Reference Protein Sequences
RefSeq Acc Id: NP_001101713   ⟸   NM_001108243
- Peptide Label: precursor
- UniProtKB: B5DF94 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000005020   ⟸   ENSRNOT00000005020
RefSeq Acc Id: XP_038955648   ⟸   XM_039099720
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038955645   ⟸   XM_039099717
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038955647   ⟸   XM_039099719
- Peptide Label: isoform X1
RefSeq Acc Id: ENSRNOP00000085502   ⟸   ENSRNOT00000103433
Protein Domains
HYR   Sushi

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-B5DF94-F1-model_v2 AlphaFold B5DF94 1-466 view protein structure

Transcriptome

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

Promoters
RGD ID:13701927
Promoter ID:EPDNEW_R12451
Type:initiation region
Name:Srpx2_1
Description:sushi-repeat-containing protein, X-linked 2
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_6.0X104,734,098 - 104,734,158EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1562444 AgrOrtholog
BioCyc Gene G2FUF-1698 BioCyc
Ensembl Genes ENSRNOG00000003715 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOG00055014592 UniProtKB/Swiss-Prot
  ENSRNOG00060019766 UniProtKB/Swiss-Prot
  ENSRNOG00065006239 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000103433 ENTREZGENE
  ENSRNOT00000103433.1 UniProtKB/Swiss-Prot
  ENSRNOT00055025023 UniProtKB/Swiss-Prot
  ENSRNOT00060034112 UniProtKB/Swiss-Prot
  ENSRNOT00065009528 UniProtKB/Swiss-Prot
Gene3D-CATH Complement Module, domain 1 UniProtKB/Swiss-Prot
InterPro DUF4174 UniProtKB/Swiss-Prot
  HYR_dom UniProtKB/Swiss-Prot
  SRPX-like UniProtKB/Swiss-Prot
  Sushi/SCR/CCP_sf UniProtKB/Swiss-Prot
  Sushi_SCR_CCP_dom UniProtKB/Swiss-Prot
KEGG Report rno:317181 UniProtKB/Swiss-Prot
NCBI Gene 317181 ENTREZGENE
PANTHER PTHR46343 UniProtKB/Swiss-Prot
  PTHR46343:SF3 UniProtKB/Swiss-Prot
Pfam DUF4174 UniProtKB/Swiss-Prot
  HYR UniProtKB/Swiss-Prot
  Sushi UniProtKB/Swiss-Prot
PhenoGen Srpx2 PhenoGen
PROSITE HYR UniProtKB/Swiss-Prot
  SUSHI UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000003715 RatGTEx
  ENSRNOG00055014592 RatGTEx
  ENSRNOG00060019766 RatGTEx
  ENSRNOG00065006239 RatGTEx
SMART CCP UniProtKB/Swiss-Prot
Superfamily-SCOP SSF57535 UniProtKB/Swiss-Prot
UniProt B5DF94 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-04-30 Srpx2  sushi-repeat-containing protein, X-linked 2   Srpx2_predicted  sushi-repeat-containing protein, X-linked 2 (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-30 Srpx2_predicted  sushi-repeat-containing protein, X-linked 2 (predicted)  RGD1562444_predicted  similar to Sushi-repeat containing protein (predicted)  Symbol and Name updated 1299863 APPROVED
2006-03-07 RGD1562444_predicted  similar to Sushi-repeat containing protein (predicted)  LOC317181  similar to Sushi-repeat containing protein  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC317181  similar to Sushi-repeat containing protein      Symbol and Name status set to provisional 70820 PROVISIONAL