Human Gene SDC2 (ENST00000522911.5) Description and Page Index
Description: Cell surface proteoglycan (By similarity). (from UniProt E9PBI9) RefSeq Summary (NM_002998): The protein encoded by this gene is a transmembrane (type I) heparan sulfate proteoglycan and is a member of the syndecan proteoglycan family. The syndecans mediate cell binding, cell signaling, and cytoskeletal organization and syndecan receptors are required for internalization of the HIV-1 tat protein. The syndecan-2 protein functions as an integral membrane protein and participates in cell proliferation, cell migration and cell-matrix interactions via its receptor for extracellular matrix proteins. Altered syndecan-2 expression has been detected in several different tumor types. [provided by RefSeq, Jul 2008]. Publication Note: This RefSeq record includes a subset of the publications that are available for this gene. Please see the Gene record to access additional publications. ##Evidence-Data-START## Transcript exon combination :: SRR1803615.250362.1, SRR1660809.243341.1 [ECO:0000332] RNAseq introns :: single sample supports all introns SAMEA1965299, SAMEA1966682 [ECO:0000348] ##Evidence-Data-END## ##RefSeq-Attributes-START## MANE Ensembl match :: ENST00000302190.9/ ENSP00000307046.4 RefSeq Select criteria :: based on conservation, expression, longest protein ##RefSeq-Attributes-END## Gencode Transcript: ENST00000522911.5 Gencode Gene: ENSG00000169439.12 Transcript (Including UTRs) Position: hg38 chr8:96,494,008-96,609,643 Size: 115,636 Total Exon Count: 5 Strand: + Coding Region Position: hg38 chr8:96,593,507-96,609,548 Size: 16,042 Coding Exon Count: 4
ID:E9PBI9_HUMAN DESCRIPTION: RecName: Full=Syndecan; FUNCTION: Cell surface proteoglycan (By similarity). SUBCELLULAR LOCATION: Membrane; Single-pass type I membrane protein (By similarity). SIMILARITY: Belongs to the syndecan proteoglycan family. CAUTION: The sequence shown here is derived from an Ensembl automatic analysis pipeline and should be considered as preliminary data.
The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.
ModBase Predicted Comparative 3D Structure on E9PBI9
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.
Orthologous Genes in Other Species
Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.