LOC101960082 (syndecan binding protein) - Rat Genome Database

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Gene: LOC101960082 (syndecan binding protein) Ictidomys tridecemlineatus
Analyze
Symbol: LOC101960082
Name: syndecan binding protein
RGD ID: 12615362
Description: ENCODES a protein that exhibits cell adhesion molecule binding (ortholog); ephrin receptor binding (ortholog); growth factor binding (ortholog); INVOLVED IN presynapse assembly (ortholog); Ras protein signal transduction (ortholog); PARTICIPATES IN interleukin-5 signaling pathway; syndecan signaling pathway; ASSOCIATED WITH osteoarthritis (ortholog); FOUND IN mitochondrion (ortholog); postsynaptic density (ortholog); synapse (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: Sdcbp; syndecan binding protein, transcript variant X1; syndecan binding protein, transcript variant X2; syntenin-1
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: SpeTri2.0 - Squirrel SpeTri2.0 Assembly
Position:
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
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
References

Genomics

Comparative Map Data
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
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38858,553,261 - 58,582,858 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl858,552,924 - 58,582,859 (+)EnsemblGRCh38hg38GRCh38
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
T2T-CHM13v2.0858,974,408 - 59,004,011 (+)NCBI
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 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl519,489,961 - 19,527,572 (+)Ensembl
Rnor_6.0519,471,664 - 19,498,499 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl519,471,664 - 19,498,485 (+)EnsemblRnor6.0rn6Rnor6.0
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
ROS_Cfam_1.0 Ensembl299,417,305 - 9,455,885 (+)Ensembl
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
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 - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1854,536,286 - 54,565,884 (+)NCBIChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366603987,157,660 - 87,187,388 (-)NCBIVero_WHO_p1.0
Sdcbp
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474433,524,416 - 33,557,025 (-)EnsemblHetGla_female_1.0hetGla2
HetGla 1.0NW_00462474433,524,045 - 33,558,963 (-)NCBIHetGla_female_1.0hetGla2


Expression


Sequence


Reference Sequences
RefSeq Acc Id: XM_005322981   ⟹   XP_005323038
RefSeq Status:
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440530360,438,300 - 60,453,495 (+)NCBI
SpeTri2.0NW_00493649614,331,971 - 14,347,123 (-)NCBI
Sequence:
RefSeq Acc Id: XM_005322982   ⟹   XP_005323039
RefSeq Status:
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440530360,438,300 - 60,453,495 (+)NCBI
SpeTri2.0NW_00493649614,331,971 - 14,347,123 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_005323038 (Get FASTA)   NCBI Sequence Viewer  
  XP_005323039 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein KAG3274056 (Get FASTA)   NCBI Sequence Viewer  
  KAG3274057 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: XP_005323039   ⟸   XM_005322982
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_005323038   ⟸   XM_005322981
- Peptide Label: isoform X1
- UniProtKB: I3MAU0 (UniProtKB/TrEMBL)
- Sequence:
Protein Domains
PDZ


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSTOG00000007997 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSSTOP00000007158 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSSTOT00000007997 UniProtKB/TrEMBL
Gene3D-CATH 2.30.42.10 UniProtKB/TrEMBL
InterPro PDZ UniProtKB/TrEMBL
  PDZ_sf UniProtKB/TrEMBL
  SDCBP UniProtKB/TrEMBL
NCBI Gene Sdcbp ENTREZGENE
PANTHER PTHR12345:SF10 UniProtKB/TrEMBL
Pfam PDZ UniProtKB/TrEMBL
PROSITE PDZ UniProtKB/TrEMBL
SMART PDZ UniProtKB/TrEMBL
Superfamily-SCOP SSF50156 UniProtKB/TrEMBL
UniProt I3MAU0 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-03-26 LOC101960082  syndecan binding protein  Sdcbp  syndecan binding protein  Symbol and/or name change 5135510 APPROVED