Imported Disease Annotations - CTDTerm | Qualifier | Evidence | With | Reference | Notes | Source | Original Reference(s) | osteoarthritis | | ISO | SDCBP (Homo sapiens) | 11554173 | CTD Direct Evidence: marker/mechanism | CTD | PMID:18784066 | |
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Imported Disease Annotations - CTDTerm | Qualifier | Evidence | With | Reference | Notes | Source | Original Reference(s) | osteoarthritis | | ISO | SDCBP (Homo sapiens) | 11554173 | CTD Direct Evidence: marker/mechanism | CTD | PMID:18784066 | |
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# | 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. | Cytokine-specific transcriptional regulation through an IL-5Ralpha interacting protein. | Geijsen N, etal., Science. 2001 Aug 10;293(5532):1136-8. |
3. | Rat ISS GO annotations from GOA human gene data--August 2006 | GOA data from the GO Consortium |
4. | Rapid and differential regulation of AMPA and kainate receptors at hippocampal mossy fibre synapses by PICK1 and GRIP. | Hirbec H, etal., Neuron. 2003 Feb 20;37(4):625-38. doi: 10.1016/s0896-6273(02)01191-1. |
5. | The neural cell recognition molecule neurofascin interacts with syntenin-1 but not with syntenin-2, both of which reveal self-associating activity. | Koroll M, etal., J Biol Chem 2001 Apr 6;276(14):10646-54. |
6. | Ephrin-B1 and ephrin-B2 mediate EphB-dependent presynaptic development via syntenin-1. | McClelland AC, etal., Proc Natl Acad Sci U S A. 2009 Dec 1;106(48):20487-92. doi: 10.1073/pnas.0811862106. Epub 2009 Nov 13. |
7. | Rat ISS GO annotations from MGI mouse gene data--August 2006 | MGD data from the GO Consortium |
8. | Electronic Transfer of LocusLink and RefSeq Data | NCBI rat LocusLink and RefSeq merged data July 26, 2002 |
9. | The neuronal glycine transporter 2 interacts with the PDZ domain protein syntenin-1. | Ohno K, etal., Mol Cell Neurosci. 2004 Aug;26(4):518-29. doi: 10.1016/j.mcn.2004.04.007. |
10. | PID Annotation Import Pipeline | Pipeline to import Pathway Interaction Database annotations from NCI into RGD |
11. | GOA pipeline | RGD automated data pipeline |
12. | Data Import for Chemical-Gene Interactions | RGD automated import pipeline for gene-chemical interactions |
13. | Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. | Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11. |
14. | Characterization of syntenin, a syndecan-binding PDZ protein, as a component of cell adhesion sites and microfilaments. | Zimmermann P, etal., Mol Biol Cell 2001 Feb;12(2):339-50. |
PMID:9391086 | PMID:9883737 | PMID:10230395 | PMID:11434923 | PMID:11891216 | PMID:12037664 | PMID:15014045 | PMID:15371445 | PMID:15458844 | PMID:15489334 | PMID:15797720 | PMID:16421316 |
PMID:16502470 | PMID:18256285 | PMID:19056867 | PMID:19199708 | PMID:20458337 | PMID:21082674 | PMID:21362503 | PMID:22516433 | PMID:22660413 | PMID:22673509 | PMID:23376485 | PMID:23533145 |
PMID:24769233 | PMID:25468996 | PMID:25893292 | PMID:26539120 | PMID:27386966 | PMID:27830760 |
Sdcbp (Rattus norvegicus - Norway rat) |
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SDCBP (Homo sapiens - human) |
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Sdcbp (Mus musculus - house mouse) |
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Sdcbp (Chinchilla lanigera - long-tailed chinchilla) |
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SDCBP (Pan paniscus - bonobo/pygmy chimpanzee) |
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SDCBP (Canis lupus familiaris - dog) |
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Sdcbp (Ictidomys tridecemlineatus - thirteen-lined ground squirrel) |
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SDCBP (Sus scrofa - pig) |
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SDCBP (Chlorocebus sabaeus - green monkey) |
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Sdcbp (Heterocephalus glaber - naked mole-rat) |
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Variants in Sdcbp
164 total Variants |
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. |
The following QTLs overlap with this region. | Full Report | CSV | TAB | Printer | Gviewer |
RH129294 |
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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 | 3 | 43 | 57 | 41 | 19 | 41 | 8 | 11 | 74 | 35 | 41 | 11 | 8 |
Low | |||||||||||||
Below cutoff |
RefSeq Transcripts | NM_031986 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles |
XM_039110855 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
XM_039110857 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
XM_039110858 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
XM_039110859 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
XM_039110860 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
XM_039110861 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
XM_039110862 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
XM_039110863 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
XM_039110864 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
XM_063288487 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
XM_063288488 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
XM_063288489 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
XM_063288490 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
XM_063288491 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
GenBank Nucleotide | AC135473 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles |
AF248548 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
AJ292243 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
BC064651 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
CH473984 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
FQ225374 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
FQ226774 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
FQ230274 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
JAXUCZ010000005 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles |
RefSeq Acc Id: | ENSRNOT00000013563 ⟹ ENSRNOP00000013563 | ||||||||||||
Type: | CODING | ||||||||||||
Position: |
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RefSeq Acc Id: | ENSRNOT00000098340 ⟹ ENSRNOP00000079793 | ||||||||
Type: | CODING | ||||||||
Position: |
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RefSeq Acc Id: | ENSRNOT00000110124 ⟹ ENSRNOP00000084825 | ||||||||
Type: | CODING | ||||||||
Position: |
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RefSeq Acc Id: | ENSRNOT00000115856 ⟹ ENSRNOP00000081603 | ||||||||
Type: | CODING | ||||||||
Position: |
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RefSeq Acc Id: | NM_031986 ⟹ NP_114192 | ||||||||||||||||||||||||||||
RefSeq Status: | VALIDATED | ||||||||||||||||||||||||||||
Type: | CODING | ||||||||||||||||||||||||||||
Position: |
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Sequence: |
RefSeq Acc Id: | XM_039110855 ⟹ XP_038966783 | ||||||||||||
Type: | CODING | ||||||||||||
Position: |
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RefSeq Acc Id: | XM_039110857 ⟹ XP_038966785 | ||||||||||||
Type: | CODING | ||||||||||||
Position: |
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RefSeq Acc Id: | XM_039110858 ⟹ XP_038966786 | ||||||||||||
Type: | CODING | ||||||||||||
Position: |
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RefSeq Acc Id: | XM_039110859 ⟹ XP_038966787 | ||||||||||||
Type: | CODING | ||||||||||||
Position: |
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RefSeq Acc Id: | XM_039110860 ⟹ XP_038966788 | ||||||||||||
Type: | CODING | ||||||||||||
Position: |
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RefSeq Acc Id: | XM_039110861 ⟹ XP_038966789 | ||||||||||||
Type: | CODING | ||||||||||||
Position: |
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RefSeq Acc Id: | XM_039110862 ⟹ XP_038966790 | ||||||||||||
Type: | CODING | ||||||||||||
Position: |
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RefSeq Acc Id: | XM_039110863 ⟹ XP_038966791 | ||||||||||||
Type: | CODING | ||||||||||||
Position: |
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RefSeq Acc Id: | XM_039110864 ⟹ XP_038966792 | ||||||||||||
Type: | CODING | ||||||||||||
Position: |
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RefSeq Acc Id: | XM_063288487 ⟹ XP_063144557 | ||||||||
Type: | CODING | ||||||||
Position: |
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RefSeq Acc Id: | XM_063288488 ⟹ XP_063144558 | ||||||||
Type: | CODING | ||||||||
Position: |
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RefSeq Acc Id: | XM_063288489 ⟹ XP_063144559 | ||||||||
Type: | CODING | ||||||||
Position: |
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RefSeq Acc Id: | XM_063288490 ⟹ XP_063144560 | ||||||||
Type: | CODING | ||||||||
Position: |
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RefSeq Acc Id: | XM_063288491 ⟹ XP_063144561 | ||||||||
Type: | CODING | ||||||||
Position: |
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Protein RefSeqs | NP_114192 | (Get FASTA) | NCBI Sequence Viewer |
XP_038966783 | (Get FASTA) | NCBI Sequence Viewer | |
XP_038966785 | (Get FASTA) | NCBI Sequence Viewer | |
XP_038966786 | (Get FASTA) | NCBI Sequence Viewer | |
XP_038966787 | (Get FASTA) | NCBI Sequence Viewer | |
XP_038966788 | (Get FASTA) | NCBI Sequence Viewer | |
XP_038966789 | (Get FASTA) | NCBI Sequence Viewer | |
XP_038966790 | (Get FASTA) | NCBI Sequence Viewer | |
XP_038966791 | (Get FASTA) | NCBI Sequence Viewer | |
XP_038966792 | (Get FASTA) | NCBI Sequence Viewer | |
XP_063144557 | (Get FASTA) | NCBI Sequence Viewer | |
XP_063144558 | (Get FASTA) | NCBI Sequence Viewer | |
XP_063144559 | (Get FASTA) | NCBI Sequence Viewer | |
XP_063144560 | (Get FASTA) | NCBI Sequence Viewer | |
XP_063144561 | (Get FASTA) | NCBI Sequence Viewer | |
GenBank Protein | AAF86960 | (Get FASTA) | NCBI Sequence Viewer |
AAH64651 | (Get FASTA) | NCBI Sequence Viewer | |
CAC21602 | (Get FASTA) | NCBI Sequence Viewer | |
EDM11636 | (Get FASTA) | NCBI Sequence Viewer | |
EDM11637 | (Get FASTA) | NCBI Sequence Viewer | |
EDM11638 | (Get FASTA) | NCBI Sequence Viewer | |
Ensembl Protein | ENSRNOP00000013563.5 | ||
ENSRNOP00000079793 | |||
ENSRNOP00000079793.1 | |||
ENSRNOP00000081603 | |||
ENSRNOP00000081603.1 | |||
ENSRNOP00000084825.1 | |||
GenBank Protein | Q9JI92 | (Get FASTA) | NCBI Sequence Viewer |
RefSeq Acc Id: | NP_114192 ⟸ NM_031986 |
- UniProtKB: | Q9JI92 (UniProtKB/Swiss-Prot), A0A8L2Q6V7 (UniProtKB/TrEMBL) |
- Sequence: |
RefSeq Acc Id: | ENSRNOP00000013563 ⟸ ENSRNOT00000013563 |
RefSeq Acc Id: | XP_038966785 ⟸ XM_039110857 |
- Peptide Label: | isoform X1 |
- UniProtKB: | Q9JI92 (UniProtKB/Swiss-Prot), A0A8L2Q6V7 (UniProtKB/TrEMBL) |
RefSeq Acc Id: | XP_038966790 ⟸ XM_039110862 |
- Peptide Label: | isoform X2 |
- UniProtKB: | A0A8L2Q6V7 (UniProtKB/TrEMBL) |
RefSeq Acc Id: | XP_038966783 ⟸ XM_039110855 |
- Peptide Label: | isoform X1 |
- UniProtKB: | Q9JI92 (UniProtKB/Swiss-Prot), A0A8L2Q6V7 (UniProtKB/TrEMBL) |
RefSeq Acc Id: | XP_038966791 ⟸ XM_039110863 |
- Peptide Label: | isoform X2 |
- UniProtKB: | A0A8L2Q6V7 (UniProtKB/TrEMBL) |
RefSeq Acc Id: | XP_038966786 ⟸ XM_039110858 |
- Peptide Label: | isoform X1 |
- UniProtKB: | Q9JI92 (UniProtKB/Swiss-Prot), A0A8L2Q6V7 (UniProtKB/TrEMBL) |
RefSeq Acc Id: | XP_038966788 ⟸ XM_039110860 |
- Peptide Label: | isoform X1 |
- UniProtKB: | Q9JI92 (UniProtKB/Swiss-Prot), A0A8L2Q6V7 (UniProtKB/TrEMBL) |
RefSeq Acc Id: | XP_038966789 ⟸ XM_039110861 |
- Peptide Label: | isoform X1 |
- UniProtKB: | Q9JI92 (UniProtKB/Swiss-Prot), A0A8L2Q6V7 (UniProtKB/TrEMBL) |
RefSeq Acc Id: | XP_038966792 ⟸ XM_039110864 |
- Peptide Label: | isoform X2 |
- UniProtKB: | A0A8L2Q6V7 (UniProtKB/TrEMBL) |
RefSeq Acc Id: | XP_038966787 ⟸ XM_039110859 |
- Peptide Label: | isoform X1 |
- UniProtKB: | Q9JI92 (UniProtKB/Swiss-Prot), A0A8L2Q6V7 (UniProtKB/TrEMBL) |
RefSeq Acc Id: | ENSRNOP00000079793 ⟸ ENSRNOT00000098340 |
RefSeq Acc Id: | ENSRNOP00000084825 ⟸ ENSRNOT00000110124 |
RefSeq Acc Id: | ENSRNOP00000081603 ⟸ ENSRNOT00000115856 |
RefSeq Acc Id: | XP_063144559 ⟸ XM_063288489 |
- Peptide Label: | isoform X2 |
RefSeq Acc Id: | XP_063144557 ⟸ XM_063288487 |
- Peptide Label: | isoform X1 |
RefSeq Acc Id: | XP_063144558 ⟸ XM_063288488 |
- Peptide Label: | isoform X2 |
RefSeq Acc Id: | XP_063144560 ⟸ XM_063288490 |
- Peptide Label: | isoform X2 |
RefSeq Acc Id: | XP_063144561 ⟸ XM_063288491 |
- Peptide Label: | isoform X2 |
Name | Modeler | Protein Id | AA Range | Protein Structure |
AF-Q9JI92-F1-model_v2 | AlphaFold | Q9JI92 | 1-300 | view protein structure |
eQTL | View at Phenogen | |
WGCNA | View at Phenogen | |
Tissue/Strain Expression | View at Phenogen |
RGD ID: | 13693554 | ||||||||
Promoter ID: | EPDNEW_R4078 | ||||||||
Type: | multiple initiation site | ||||||||
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: |
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Database | Acc Id | Source(s) |
AGR Gene | RGD:621497 | AgrOrtholog |
BioCyc Gene | G2FUF-42071 | BioCyc |
Ensembl Genes | ENSRNOG00000009683 | Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL |
Ensembl Transcript | ENSRNOT00000013563.8 | UniProtKB/TrEMBL |
ENSRNOT00000098340.1 | UniProtKB/TrEMBL | |
ENSRNOT00000110124.1 | UniProtKB/TrEMBL | |
ENSRNOT00000115856 | ENTREZGENE | |
ENSRNOT00000115856.1 | UniProtKB/Swiss-Prot | |
Gene3D-CATH | 2.30.42.10 | UniProtKB/Swiss-Prot, UniProtKB/TrEMBL |
IMAGE_CLONE | IMAGE:5598152 | IMAGE-MGC_LOAD |
InterPro | PDZ | UniProtKB/Swiss-Prot, UniProtKB/TrEMBL |
PDZ_sf | UniProtKB/Swiss-Prot, UniProtKB/TrEMBL | |
KEGG Report | rno:83841 | UniProtKB/Swiss-Prot |
MGC_CLONE | MGC:72376 | IMAGE-MGC_LOAD |
NCBI Gene | 83841 | ENTREZGENE |
PANTHER | PTHR12345:SF10 | UniProtKB/Swiss-Prot, UniProtKB/TrEMBL |
SYNTENIN RELATED | UniProtKB/Swiss-Prot, UniProtKB/TrEMBL | |
Pfam | PDZ | UniProtKB/Swiss-Prot, UniProtKB/TrEMBL |
PhenoGen | Sdcbp | PhenoGen |
PROSITE | PDZ | UniProtKB/Swiss-Prot, UniProtKB/TrEMBL |
RatGTEx | ENSRNOG00000009683 | RatGTEx |
SMART | PDZ | UniProtKB/Swiss-Prot, UniProtKB/TrEMBL |
Superfamily-SCOP | SSF50156 | UniProtKB/Swiss-Prot, UniProtKB/TrEMBL |
UniProt | A0A8I6A1Z6_RAT | UniProtKB/TrEMBL |
A0A8I6G5R4_RAT | UniProtKB/TrEMBL | |
A0A8L2Q6V7 | ENTREZGENE, UniProtKB/TrEMBL | |
A6JFP0_RAT | UniProtKB/TrEMBL | |
A6JFP1_RAT | UniProtKB/TrEMBL | |
A6JFP2_RAT | UniProtKB/TrEMBL | |
Q9JI92 | ENTREZGENE, UniProtKB/Swiss-Prot |
Date | Current Symbol | Current Name | Previous Symbol | Previous Name | Description | Reference | Status |
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2021-03-09 | Sdcbp | syndecan binding protein | LOC108350925 | uncharacterized LOC108350925 | Data merged from RGD:11372204 | 737654 | PROVISIONAL |
2016-08-02 | LOC108350925 | uncharacterized LOC108350925 | Symbol and Name status set to provisional | 70820 | PROVISIONAL | ||
2005-01-20 | Sdcbp | syndecan binding protein | syntenin | Name updated | 1299863 | APPROVED | |
2002-08-07 | Sdcbp | syntenin | Symbol and Name status set to provisional | 70820 | PROVISIONAL |
Note Type | Note | Reference |
---|---|---|
gene_physical_interaction | interacts with syntenin-2 | 633988 |
gene_protein | forms homodimers | 633988 |