SDCBP (syndecan binding protein) - Rat Genome Database

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Gene: SDCBP (syndecan binding protein) Homo sapiens
Analyze
Symbol: SDCBP
Name: syndecan binding protein
RGD ID: 1343667
HGNC Page HGNC
Description: Exhibits several functions, including frizzled binding activity; phosphatidylinositol-4,5-bisphosphate binding activity; and protein heterodimerization activity. Involved in several processes, including negative regulation of cellular metabolic process; positive regulation of cellular component biogenesis; and positive regulation of transmembrane receptor protein serine/threonine kinase signaling pathway. Localizes to several cellular components, including extracellular exosome; membrane raft; and nucleus.
Type: protein-coding
RefSeq Status: REVIEWED
Also known as: MDA-9; MDA9; melanoma differentiation associated protein-9; melanoma differentiation-associated protein 9; pro-TGF-alpha cytoplasmic domain-interacting protein 18; scaffold protein Pbp1; ST1; SYCL; syndecan binding protein (syntenin); syndecan-binding protein 1; syntenin-1; TACIP18
RGD Orthologs
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Related Pseudogenes: SDCBPP1   SDCBPP2   SDCBPP3  
Allele / Splice: See ClinVar data
Latest Assembly: GRCh38 - Human Genome Assembly GRCh38
Position:
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl858,552,924 - 58,582,859 (+)EnsemblGRCh38hg38GRCh38
GRCh38858,553,261 - 58,582,860 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37859,465,820 - 59,495,417 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36859,628,282 - 59,657,973 (+)NCBINCBI36hg18NCBI36
Build 34859,628,281 - 59,657,972NCBI
Celera855,458,752 - 55,488,443 (+)NCBI
Cytogenetic Map8q12.1NCBI
HuRef854,952,903 - 54,982,593 (+)NCBIHuRef
CHM1_1859,517,611 - 59,547,302 (+)NCBICHM1_1
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
Gene Ontology Annotations     Click to see Annotation Detail View

Molecular Pathway Annotations     Click to see Annotation Detail View
References

Additional References at PubMed
PMID:9391086   PMID:9511750   PMID:9883737   PMID:9920925   PMID:10230395   PMID:10473577   PMID:10770943   PMID:11152476   PMID:11179419   PMID:11432873   PMID:11434923   PMID:11498591  
PMID:11891216   PMID:12037664   PMID:12086619   PMID:12202822   PMID:12241528   PMID:12403354   PMID:12477932   PMID:12597860   PMID:12643545   PMID:12679023   PMID:12775419   PMID:12842047  
PMID:15014045   PMID:15081807   PMID:15126321   PMID:15231748   PMID:15254681   PMID:15276154   PMID:15371445   PMID:15489334   PMID:15518882   PMID:16034076   PMID:16169070   PMID:16196087  
PMID:16322237   PMID:16344560   PMID:16502470   PMID:17081065   PMID:17451681   PMID:17666427   PMID:18234474   PMID:18256285   PMID:18832467   PMID:18839981   PMID:19056867   PMID:19199708  
PMID:19228696   PMID:19592421   PMID:19654410   PMID:19738201   PMID:20145126   PMID:20228839   PMID:20233700   PMID:20458337   PMID:21082674   PMID:21359963   PMID:21362503   PMID:21569759  
PMID:21828040   PMID:21873635   PMID:21949238   PMID:21986941   PMID:21988832   PMID:22190034   PMID:22201728   PMID:22267972   PMID:22349701   PMID:22412018   PMID:22516433   PMID:22535526  
PMID:22623428   PMID:22660413   PMID:22673509   PMID:22721673   PMID:22810586   PMID:22938480   PMID:23066033   PMID:23233738   PMID:23376485   PMID:23414517   PMID:23533145   PMID:23533663  
PMID:23873690   PMID:24305713   PMID:24457600   PMID:24637612   PMID:24662291   PMID:24722188   PMID:24749734   PMID:24769233   PMID:24999758   PMID:25122212   PMID:25144756   PMID:25219541  
PMID:25281560   PMID:25416956   PMID:25468996   PMID:25480418   PMID:25665578   PMID:25693804   PMID:25737280   PMID:25893292   PMID:25910212   PMID:26032692   PMID:26093898   PMID:26172215  
PMID:26186194   PMID:26496610   PMID:26539120   PMID:26561205   PMID:26561776   PMID:26638075   PMID:26787460   PMID:27107012   PMID:27386966   PMID:27472461   PMID:27609421   PMID:27720715  
PMID:27802291   PMID:27811365   PMID:27863394   PMID:28141839   PMID:28190767   PMID:28380382   PMID:28418925   PMID:28514442   PMID:28515276   PMID:29109268   PMID:29572229   PMID:29760085  
PMID:29845474   PMID:29892012   PMID:30471916   PMID:30608040   PMID:30804502   PMID:30890647   PMID:30948266   PMID:30979931   PMID:31024042   PMID:31406249   PMID:31515488   PMID:31527615  
PMID:31586073   PMID:31795513   PMID:31930596   PMID:31995728   PMID:32061839   PMID:32106836   PMID:32296183   PMID:32321914   PMID:32546618   PMID:32572027   PMID:32595209   PMID:32626944  
PMID:32731849   PMID:32780723   PMID:32814053   PMID:33144569  


Genomics

Comparative Map Data
SDCBP
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl858,552,924 - 58,582,859 (+)EnsemblGRCh38hg38GRCh38
GRCh38858,553,261 - 58,582,860 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37859,465,820 - 59,495,417 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36859,628,282 - 59,657,973 (+)NCBINCBI36hg18NCBI36
Build 34859,628,281 - 59,657,972NCBI
Celera855,458,752 - 55,488,443 (+)NCBI
Cytogenetic Map8q12.1NCBI
HuRef854,952,903 - 54,982,593 (+)NCBIHuRef
CHM1_1859,517,611 - 59,547,302 (+)NCBICHM1_1
Sdcbp
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3946,365,654 - 6,396,122 (+)NCBIGRCm39mm39
GRCm39 Ensembl46,365,650 - 6,408,423 (+)Ensembl
GRCm3846,365,680 - 6,396,122 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl46,365,650 - 6,408,423 (+)EnsemblGRCm38mm10GRCm38
MGSCv3746,292,827 - 6,323,269 (+)NCBIGRCm37mm9NCBIm37
MGSCv3646,292,868 - 6,322,797 (+)NCBImm8
Celera46,283,969 - 6,314,409 (+)NCBICelera
Cytogenetic Map4A1NCBI
Sdcbp
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2519,473,499 - 19,517,188 (+)NCBI
Rnor_6.0 Ensembl519,471,664 - 19,498,485 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0519,471,664 - 19,498,499 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0524,256,110 - 24,283,037 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4519,822,440 - 19,849,223 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1519,822,439 - 19,849,220 (+)NCBI
Celera518,790,757 - 18,817,395 (+)NCBICelera
Cytogenetic Map5q12NCBI
Sdcbp
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495545417,089,232 - 17,113,484 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495545417,093,930 - 17,113,491 (+)NCBIChiLan1.0ChiLan1.0
SDCBP
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1856,643,962 - 56,673,834 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl856,643,962 - 56,673,833 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0854,992,627 - 55,022,560 (+)NCBIMhudiblu_PPA_v0panPan3
LOC482977
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1299,331,876 - 9,370,489 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha299,644,617 - 9,683,238 (+)NCBI
ROS_Cfam_1.0299,417,267 - 9,455,907 (+)NCBI
UMICH_Zoey_3.1299,415,389 - 9,453,988 (+)NCBI
UNSW_CanFamBas_1.0299,541,083 - 9,579,672 (+)NCBI
UU_Cfam_GSD_1.0299,820,349 - 9,859,247 (+)NCBI
LOC101960082
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440530360,438,300 - 60,453,495 (+)NCBI
SpeTri2.0NW_00493649614,331,971 - 14,347,123 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SDCBP
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl474,295,922 - 74,341,085 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1474,295,941 - 74,357,720 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2481,090,105 - 81,122,727 (-)NCBISscrofa10.2Sscrofa10.2susScr3
LOC103236850
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1854,536,286 - 54,565,884 (+)NCBI
Sdcbp
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462474433,524,045 - 33,558,963 (-)NCBI

Position Markers
RH16388  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh37859,494,938 - 59,495,120UniSTSGRCh37
Build 36859,657,492 - 59,657,674RGDNCBI36
Celera855,487,962 - 55,488,144RGD
Cytogenetic Map8q12UniSTS
HuRef854,982,112 - 54,982,294UniSTS
GeneMap99-GB4 RH Map8322.11UniSTS
NCBI RH Map8795.3UniSTS
SHGC-83  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh37859,494,516 - 59,494,669UniSTSGRCh37
GRCh37X40,749,220 - 40,749,373UniSTSGRCh37
Build 36X40,634,164 - 40,634,317RGDNCBI36
CeleraX44,889,009 - 44,889,162RGD
Celera855,487,540 - 55,487,693UniSTS
Cytogenetic Map8q12UniSTS
HuRef854,981,690 - 54,981,843UniSTS
HuRefX38,478,853 - 38,479,006UniSTS
SHGC-35930  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh37859,494,687 - 59,494,811UniSTSGRCh37
Build 36859,657,241 - 59,657,365RGDNCBI36
Celera855,487,711 - 55,487,835RGD
Cytogenetic Map8q12UniSTS
HuRef854,981,861 - 54,981,985UniSTS
GeneMap99-G3 RH Map82494.0UniSTS
RH64949  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh37859,494,621 - 59,494,811UniSTSGRCh37
GRCh37X40,749,071 - 40,749,268UniSTSGRCh37
Build 36X40,634,015 - 40,634,212RGDNCBI36
CeleraX44,888,860 - 44,889,057RGD
Celera855,487,645 - 55,487,835UniSTS
Cytogenetic Map8q12UniSTS
HuRef854,981,795 - 54,981,985UniSTS
HuRefX38,478,704 - 38,478,901UniSTS
GeneMap99-GB4 RH Map8315.59UniSTS
SGC32650  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh37859,494,393 - 59,494,519UniSTSGRCh37
GRCh37X40,749,370 - 40,749,803UniSTSGRCh37
Build 36X40,634,314 - 40,634,747RGDNCBI36
CeleraX44,889,159 - 44,889,592RGD
Celera855,487,417 - 55,487,543UniSTS
Cytogenetic Map8q12UniSTS
Cytogenetic MapXp11.4UniSTS
HuRef854,981,567 - 54,981,693UniSTS
HuRefX38,479,003 - 38,479,436UniSTS
GeneMap99-GB4 RH Map8317.55UniSTS
Whitehead-RH Map8411.4UniSTS
RH47142  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh37859,494,393 - 59,494,571UniSTSGRCh37
GRCh37X40,749,318 - 40,749,803UniSTSGRCh37
Build 36X40,634,262 - 40,634,747RGDNCBI36
CeleraX44,889,107 - 44,889,592RGD
Celera855,487,417 - 55,487,595UniSTS
Cytogenetic Map8q12UniSTS
Cytogenetic MapXp11.4UniSTS
HuRef854,981,567 - 54,981,745UniSTS
HuRefX38,478,951 - 38,479,436UniSTS
GeneMap99-GB4 RH Map8323.87UniSTS
STS-G07282  
Human AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map8q12UniSTS
GeneMap99-GB4 RH Map8298.8UniSTS
NCBI RH Map8718.3UniSTS
D8S1955  
Human AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map8q12UniSTS
Whitehead-YAC Contig Map8 UniSTS
RH91764  
Human AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map8q12UniSTS
GeneMap99-GB4 RH Map8322.11UniSTS

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:2630
Count of miRNA genes:724
Interacting mature miRNAs:793
Transcripts:ENST00000260130, ENST00000413219, ENST00000422546, ENST00000424270, ENST00000447182, ENST00000447267, ENST00000519115, ENST00000520168, ENST00000520228, ENST00000522243, ENST00000522843, ENST00000523441, ENST00000523483
Prediction methods:Microtar, Miranda, Rnahybrid
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


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 sensory system visual system adipose tissue appendage entire extraembryonic component pharyngeal arch
High 11 11 12
Medium 2439 2960 1724 622 1931 463 4342 2174 3732 415 1458 1612 175 1 1204 2785 6 2
Low 20 2 2 8 2 3 23 2 4 2 1 3
Below cutoff 1

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001007067 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001007068 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001007069 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001007070 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001330537 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001348339 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001348340 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001348341 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_005625 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_024447229 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_024447230 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_024447231 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AA854128 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC068522 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF000652 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF006636 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK128645 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK295198 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK298697 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK300647 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK312274 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC013254 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC113674 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC113676 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC143915 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC143916 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BG111210 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BG772269 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BU160865 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH471068 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  DA466513 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  U83463 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENST00000260130   ⟹   ENSP00000260130
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl858,553,261 - 58,582,858 (+)Ensembl
RefSeq Acc Id: ENST00000413219   ⟹   ENSP00000411771
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl858,553,217 - 58,582,830 (+)Ensembl
RefSeq Acc Id: ENST00000424270   ⟹   ENSP00000395351
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl858,553,237 - 58,582,056 (+)Ensembl
RefSeq Acc Id: ENST00000447182   ⟹   ENSP00000409288
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl858,553,216 - 58,582,846 (+)Ensembl
RefSeq Acc Id: ENST00000447267   ⟹   ENSP00000397820
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl858,565,016 - 58,581,759 (+)Ensembl
RefSeq Acc Id: ENST00000519115
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl858,553,261 - 58,578,384 (+)Ensembl
RefSeq Acc Id: ENST00000520168   ⟹   ENSP00000430730
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl858,553,255 - 58,582,053 (+)Ensembl
RefSeq Acc Id: ENST00000520228
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl858,570,712 - 58,578,070 (+)Ensembl
RefSeq Acc Id: ENST00000522243
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl858,552,924 - 58,572,301 (+)Ensembl
RefSeq Acc Id: ENST00000522843
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl858,553,262 - 58,576,366 (+)Ensembl
RefSeq Acc Id: ENST00000523441
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl858,577,993 - 58,579,949 (+)Ensembl
RefSeq Acc Id: ENST00000523483   ⟹   ENSP00000428184
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl858,553,254 - 58,582,858 (+)Ensembl
RefSeq Acc Id: ENST00000630925   ⟹   ENSP00000487245
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl858,561,748 - 58,582,859 (+)Ensembl
RefSeq Acc Id: NM_001007067   ⟹   NP_001007068
RefSeq Status: REVIEWED
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38858,553,261 - 58,582,858 (+)NCBI
GRCh37859,465,566 - 59,495,419 (+)NCBI
Build 36859,628,282 - 59,657,973 (+)NCBI Archive
HuRef854,952,903 - 54,982,593 (+)ENTREZGENE
CHM1_1859,517,611 - 59,547,302 (+)NCBI
Sequence:
RefSeq Acc Id: NM_001007068   ⟹   NP_001007069
RefSeq Status: REVIEWED
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38858,553,261 - 58,582,858 (+)NCBI
GRCh37859,465,566 - 59,495,419 (+)NCBI
Build 36859,628,282 - 59,657,973 (+)NCBI Archive
HuRef854,952,903 - 54,982,593 (+)ENTREZGENE
CHM1_1859,517,611 - 59,547,302 (+)NCBI
Sequence:
RefSeq Acc Id: NM_001007069   ⟹   NP_001007070
RefSeq Status: REVIEWED
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38858,553,261 - 58,582,858 (+)NCBI
GRCh37859,465,566 - 59,495,419 (+)NCBI
Build 36859,628,282 - 59,657,973 (+)NCBI Archive
HuRef854,952,903 - 54,982,593 (+)ENTREZGENE
CHM1_1859,517,611 - 59,547,302 (+)NCBI
Sequence:
RefSeq Acc Id: NM_001007070   ⟹   NP_001007071
RefSeq Status: REVIEWED
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38858,553,261 - 58,582,858 (+)NCBI
GRCh37859,465,566 - 59,495,419 (+)NCBI
Build 36859,628,282 - 59,657,973 (+)NCBI Archive
HuRef854,952,903 - 54,982,593 (+)ENTREZGENE
CHM1_1859,517,611 - 59,547,302 (+)NCBI
Sequence:
RefSeq Acc Id: NM_001330537   ⟹   NP_001317466
RefSeq Status: REVIEWED
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38858,553,261 - 58,582,858 (+)NCBI
Sequence:
RefSeq Acc Id: NM_001348339   ⟹   NP_001335268
RefSeq Status: REVIEWED
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38858,553,261 - 58,582,858 (+)NCBI
Sequence:
RefSeq Acc Id: NM_001348340   ⟹   NP_001335269
RefSeq Status: REVIEWED
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38858,553,261 - 58,582,858 (+)NCBI
Sequence:
RefSeq Acc Id: NM_001348341   ⟹   NP_001335270
RefSeq Status: REVIEWED
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38858,553,261 - 58,582,858 (+)NCBI
Sequence:
RefSeq Acc Id: NM_005625   ⟹   NP_005616
RefSeq Status: REVIEWED
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38858,553,261 - 58,582,858 (+)NCBI
GRCh37859,465,566 - 59,495,419 (+)NCBI
Build 36859,628,282 - 59,657,973 (+)NCBI Archive
HuRef854,952,903 - 54,982,593 (+)ENTREZGENE
CHM1_1859,517,611 - 59,547,302 (+)NCBI
Sequence:
RefSeq Acc Id: XM_024447229   ⟹   XP_024302997
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38858,559,493 - 58,582,860 (+)NCBI
Sequence:
RefSeq Acc Id: XM_024447230   ⟹   XP_024302998
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38858,559,493 - 58,582,860 (+)NCBI
Sequence:
RefSeq Acc Id: XM_024447231   ⟹   XP_024302999
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38858,559,493 - 58,582,860 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001007068 (Get FASTA)   NCBI Sequence Viewer  
  NP_001007069 (Get FASTA)   NCBI Sequence Viewer  
  NP_001007070 (Get FASTA)   NCBI Sequence Viewer  
  NP_001007071 (Get FASTA)   NCBI Sequence Viewer  
  NP_001317466 (Get FASTA)   NCBI Sequence Viewer  
  NP_001335268 (Get FASTA)   NCBI Sequence Viewer  
  NP_001335269 (Get FASTA)   NCBI Sequence Viewer  
  NP_001335270 (Get FASTA)   NCBI Sequence Viewer  
  NP_005616 (Get FASTA)   NCBI Sequence Viewer  
  XP_024302997 (Get FASTA)   NCBI Sequence Viewer  
  XP_024302998 (Get FASTA)   NCBI Sequence Viewer  
  XP_024302999 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAB51246 (Get FASTA)   NCBI Sequence Viewer  
  AAB97144 (Get FASTA)   NCBI Sequence Viewer  
  AAC52050 (Get FASTA)   NCBI Sequence Viewer  
  AAI13675 (Get FASTA)   NCBI Sequence Viewer  
  AAI13677 (Get FASTA)   NCBI Sequence Viewer  
  AAI43916 (Get FASTA)   NCBI Sequence Viewer  
  AAI43917 (Get FASTA)   NCBI Sequence Viewer  
  BAG35204 (Get FASTA)   NCBI Sequence Viewer  
  BAG58197 (Get FASTA)   NCBI Sequence Viewer  
  BAG60855 (Get FASTA)   NCBI Sequence Viewer  
  BAG62335 (Get FASTA)   NCBI Sequence Viewer  
  EAW86812 (Get FASTA)   NCBI Sequence Viewer  
  EAW86813 (Get FASTA)   NCBI Sequence Viewer  
  EAW86814 (Get FASTA)   NCBI Sequence Viewer  
  EAW86815 (Get FASTA)   NCBI Sequence Viewer  
  EAW86816 (Get FASTA)   NCBI Sequence Viewer  
  O00560 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_005616   ⟸   NM_005625
- Peptide Label: isoform 1
- UniProtKB: O00560 (UniProtKB/Swiss-Prot),   A0A024R7Z5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001007070   ⟸   NM_001007069
- Peptide Label: isoform 3
- UniProtKB: O00560 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: NP_001007069   ⟸   NM_001007068
- Peptide Label: isoform 2
- UniProtKB: O00560 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: NP_001007068   ⟸   NM_001007067
- Peptide Label: isoform 1
- UniProtKB: O00560 (UniProtKB/Swiss-Prot),   A0A024R7Z5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001007071   ⟸   NM_001007070
- Peptide Label: isoform 3
- UniProtKB: O00560 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: NP_001335270   ⟸   NM_001348341
- Peptide Label: isoform 7
- Sequence:
RefSeq Acc Id: NP_001317466   ⟸   NM_001330537
- Peptide Label: isoform 4
- UniProtKB: G5EA09 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001335269   ⟸   NM_001348340
- Peptide Label: isoform 6
- Sequence:
RefSeq Acc Id: NP_001335268   ⟸   NM_001348339
- Peptide Label: isoform 5
- UniProtKB: B4DHN5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_024302997   ⟸   XM_024447229
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_024302999   ⟸   XM_024447231
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_024302998   ⟸   XM_024447230
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: ENSP00000395351   ⟸   ENST00000424270
RefSeq Acc Id: ENSP00000411771   ⟸   ENST00000413219
RefSeq Acc Id: ENSP00000430730   ⟸   ENST00000520168
RefSeq Acc Id: ENSP00000428184   ⟸   ENST00000523483
RefSeq Acc Id: ENSP00000260130   ⟸   ENST00000260130
RefSeq Acc Id: ENSP00000397820   ⟸   ENST00000447267
RefSeq Acc Id: ENSP00000409288   ⟸   ENST00000447182
RefSeq Acc Id: ENSP00000487245   ⟸   ENST00000630925
Protein Domains
PDZ

Promoters
RGD ID:7213359
Promoter ID:EPDNEW_H12425
Type:initiation region
Name:SDCBP_1
Description:syndecan binding protein
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Human AssemblyChrPosition (strand)Source
GRCh38858,553,261 - 58,553,321EPDNEW
RGD ID:6807016
Promoter ID:HG_KWN:61351
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:CD4+TCell,   CD4+TCell_12Hour,   CD4+TCell_2Hour,   HeLa_S3,   Jurkat,   K562,   Lymphoblastoid,   NB4
Transcripts:NM_001007067,   NM_001007068,   NM_001007069,   NM_001007070,   NM_005625,   UC003XTS.1
Position:
Human AssemblyChrPosition (strand)Source
Build 36859,628,129 - 59,628,629 (+)MPROMDB
RGD ID:6853466
Promoter ID:EP74558
Type:multiple initiation site
Name:HS_SDCBP
Description:Syndecan binding protein (syntenin).
SO ACC ID:SO:0000170
Source:EPD (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Mammalian gene collection (MGC) full-length cDNA cloning
Position:
Human AssemblyChrPosition (strand)Source
Build 36859,628,374 - 59,628,434EPD

Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 8p23.3-q24.3(chr8:241530-145049449)x3 copy number gain See cases [RCV000051206] Chr8:241530..145049449 [GRCh38]
Chr8:191530..146274835 [GRCh37]
Chr8:181530..146245639 [NCBI36]
Chr8:8p23.3-q24.3
pathogenic
GRCh38/hg38 8q12.1-21.13(chr8:57361243-79170078)x3 copy number gain See cases [RCV000053653] Chr8:57361243..79170078 [GRCh38]
Chr8:58273802..80082313 [GRCh37]
Chr8:58436356..80244868 [NCBI36]
Chr8:8q12.1-21.13
pathogenic
GRCh38/hg38 8p23.3-q24.3(chr8:241530-145054634)x3 copy number gain See cases [RCV000053602] Chr8:241530..145054634 [GRCh38]
Chr8:191530..146280020 [GRCh37]
Chr8:181530..146250824 [NCBI36]
Chr8:8p23.3-q24.3
pathogenic
GRCh38/hg38 8p23.3-q24.3(chr8:244417-145054775)x3 copy number gain Developmental Delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000053604]|Developmental delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000053604]|See cases [RCV000053604] Chr8:244417..145054775 [GRCh38]
Chr8:194417..146280161 [GRCh37]
Chr8:184417..146250965 [NCBI36]
Chr8:8p23.3-q24.3
pathogenic
GRCh38/hg38 8q12.1(chr8:55423413-58836753)x1 copy number loss See cases [RCV000054240] Chr8:55423413..58836753 [GRCh38]
Chr8:56335973..59749312 [GRCh37]
Chr8:56498527..59911866 [NCBI36]
Chr8:8q12.1
pathogenic
GRCh38/hg38 8q12.1-12.3(chr8:56925812-61691859)x1 copy number loss See cases [RCV000054241] Chr8:56925812..61691859 [GRCh38]
Chr8:57838371..62604418 [GRCh37]
Chr8:58000925..62766972 [NCBI36]
Chr8:8q12.1-12.3
pathogenic
GRCh38/hg38 8q11.1-13.2(chr8:46031334-69303787)x3 copy number gain See cases [RCV000133720] Chr8:46031334..69303787 [GRCh38]
Chr8:46942956..70216022 [GRCh37]
Chr8:47062121..70378576 [NCBI36]
Chr8:8q11.1-13.2
pathogenic
GRCh38/hg38 8q12.1-12.3(chr8:55315854-64952752)x3 copy number gain See cases [RCV000137672] Chr8:55315854..64952752 [GRCh38]
Chr8:56228414..65864987 [GRCh37]
Chr8:56390968..66027541 [NCBI36]
Chr8:8q12.1-12.3
pathogenic
GRCh38/hg38 8p23.3-q24.3(chr8:241605-145054781)x3 copy number gain See cases [RCV000138643] Chr8:241605..145054781 [GRCh38]
Chr8:191605..146280167 [GRCh37]
Chr8:181605..146250971 [NCBI36]
Chr8:8p23.3-q24.3
pathogenic
GRCh38/hg38 8q11.1-24.3(chr8:46031340-139285494)x3 copy number gain See cases [RCV000139539] Chr8:46031340..139285494 [GRCh38]
Chr8:46942962..140297737 [GRCh37]
Chr8:47062127..140366919 [NCBI36]
Chr8:8q11.1-24.3
pathogenic
GRCh38/hg38 8p12-q12.1(chr8:36580103-59618998)x3 copy number gain See cases [RCV000139582] Chr8:36580103..59618998 [GRCh38]
Chr8:36437621..60531557 [GRCh37]
Chr8:36556779..60694111 [NCBI36]
Chr8:8p12-q12.1
pathogenic
GRCh38/hg38 8q12.1-12.2(chr8:54821357-61146302)x1 copy number loss See cases [RCV000140643] Chr8:54821357..61146302 [GRCh38]
Chr8:55733917..62058861 [GRCh37]
Chr8:55896471..62221415 [NCBI36]
Chr8:8q12.1-12.2
pathogenic
GRCh38/hg38 8p23.3-q24.3(chr8:208048-145070385)x3 copy number gain See cases [RCV000141808] Chr8:208048..145070385 [GRCh38]
Chr8:158048..146295771 [GRCh37]
Chr8:148048..146266575 [NCBI36]
Chr8:8p23.3-q24.3
pathogenic
GRCh38/hg38 8p21.3-q24.3(chr8:21291522-145070385)x3 copy number gain See cases [RCV000142021] Chr8:21291522..145070385 [GRCh38]
Chr8:21149033..146295771 [GRCh37]
Chr8:21193313..146266575 [NCBI36]
Chr8:8p21.3-q24.3
pathogenic
GRCh38/hg38 8p23.3-q24.3(chr8:226452-145068712)x3 copy number gain See cases [RCV000142858] Chr8:226452..145068712 [GRCh38]
Chr8:176452..146294098 [GRCh37]
Chr8:166452..146264902 [NCBI36]
Chr8:8p23.3-q24.3
pathogenic
GRCh38/hg38 8q11.23-12.3(chr8:53325389-61863018)x1 copy number loss See cases [RCV000143182] Chr8:53325389..61863018 [GRCh38]
Chr8:54237949..62775577 [GRCh37]
Chr8:54400502..62938131 [NCBI36]
Chr8:8q11.23-12.3
pathogenic
GRCh38/hg38 8p23.3-q24.3(chr8:241530-145054634)x3 copy number gain See cases [RCV000148092] Chr8:241530..145054634 [GRCh38]
Chr8:191530..146280020 [GRCh37]
Chr8:181530..146250824 [NCBI36]
Chr8:8p23.3-q24.3
pathogenic
GRCh37/hg19 8q11.23-12.3(chr8:53436131-65195953)x3 copy number gain See cases [RCV000239428] Chr8:53436131..65195953 [GRCh37]
Chr8:8q11.23-12.3
pathogenic
GRCh37/hg19 8p12-q24.3(chr8:31936551-146295771)x3 copy number gain not provided [RCV000848192] Chr8:31936551..146295771 [GRCh37]
Chr8:8p12-q24.3
pathogenic
GRCh37/hg19 8p23.3-q24.3(chr8:158991-146280828)x3 copy number gain See cases [RCV000447507] Chr8:158991..146280828 [GRCh37]
Chr8:8p23.3-q24.3
pathogenic
GRCh37/hg19 8p23.3-q24.3(chr8:158049-146295771) copy number gain See cases [RCV000510234] Chr8:158049..146295771 [GRCh37]
Chr8:8p23.3-q24.3
pathogenic
GRCh37/hg19 8p23.3-q24.3(chr8:158049-146295771)x3 copy number gain See cases [RCV000511095] Chr8:158049..146295771 [GRCh37]
Chr8:8p23.3-q24.3
pathogenic
GRCh37/hg19 8p23.1-q24.3(chr8:12490999-146295771)x3 copy number gain See cases [RCV000512169] Chr8:12490999..146295771 [GRCh37]
Chr8:8p23.1-q24.3
pathogenic
GRCh37/hg19 8p23.3-q24.3(chr8:158048-146295771)x3 copy number gain not provided [RCV000848478] Chr8:158048..146295771 [GRCh37]
Chr8:8p23.3-q24.3
pathogenic
GRCh37/hg19 8p23.3-q24.3(chr8:10213-146293414)x3 copy number gain not provided [RCV000747248] Chr8:10213..146293414 [GRCh37]
Chr8:8p23.3-q24.3
pathogenic
GRCh37/hg19 8p23.3-q24.3(chr8:164984-146293414)x3 copy number gain not provided [RCV000747254] Chr8:164984..146293414 [GRCh37]
Chr8:8p23.3-q24.3
pathogenic
GRCh37/hg19 8q12.1(chr8:59446454-59523394)x3 copy number gain not provided [RCV000747594] Chr8:59446454..59523394 [GRCh37]
Chr8:8q12.1
benign
GRCh37/hg19 8p11.22-q12.3(chr8:39555657-64049089)x3 copy number gain not provided [RCV000846266] Chr8:39555657..64049089 [GRCh37]
Chr8:8p11.22-q12.3
pathogenic

Additional Information

Database Acc Id Source(s)
AGR Gene HGNC:10662 AgrOrtholog
COSMIC SDCBP COSMIC
Ensembl Genes ENSG00000137575 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSP00000260130 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSP00000395351 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSP00000397820 UniProtKB/TrEMBL
  ENSP00000409288 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSP00000411771 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSP00000428184 ENTREZGENE, UniProtKB/TrEMBL
  ENSP00000430730 ENTREZGENE, UniProtKB/TrEMBL
  ENSP00000487245 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENST00000260130 ENTREZGENE, UniProtKB/Swiss-Prot
  ENST00000413219 ENTREZGENE, UniProtKB/Swiss-Prot
  ENST00000424270 ENTREZGENE, UniProtKB/Swiss-Prot
  ENST00000447182 ENTREZGENE, UniProtKB/Swiss-Prot
  ENST00000447267 UniProtKB/TrEMBL
  ENST00000520168 ENTREZGENE, UniProtKB/TrEMBL
  ENST00000523483 ENTREZGENE, UniProtKB/TrEMBL
  ENST00000630925 ENTREZGENE, UniProtKB/TrEMBL
Gene3D-CATH 2.30.42.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
GTEx ENSG00000137575 GTEx
HGNC ID HGNC:10662 ENTREZGENE
Human Proteome Map SDCBP Human Proteome Map
InterPro PDZ UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PDZ_6 UniProtKB/TrEMBL
  PDZ_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SDCBP UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report hsa:6386 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
NCBI Gene 6386 ENTREZGENE
OMIM 602217 OMIM
PANTHER PTHR12345:SF10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam PDZ UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PDZ_6 UniProtKB/TrEMBL
PharmGKB PA35592 PharmGKB
PROSITE PDZ UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART PDZ UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF50156 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A024R7Z5 ENTREZGENE, UniProtKB/TrEMBL
  B4DHN5 ENTREZGENE, UniProtKB/TrEMBL
  E9PBU7_HUMAN UniProtKB/TrEMBL
  G5EA09 ENTREZGENE, UniProtKB/TrEMBL
  O00560 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary B2R5Q7 UniProtKB/Swiss-Prot
  B4DUH3 UniProtKB/Swiss-Prot
  B7ZLN2 UniProtKB/Swiss-Prot
  O00173 UniProtKB/Swiss-Prot
  O43391 UniProtKB/Swiss-Prot
  Q14CP2 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-11-17 SDCBP  syndecan binding protein    syndecan binding protein (syntenin)  Symbol and/or name change 5135510 APPROVED
2011-08-16 SDCBP  syndecan binding protein (syntenin)  SDCBP  syndecan binding protein (syntenin)  Symbol and/or name change 5135510 APPROVED