scube3 protein (Oryzias latipes) - STRING interaction network

Nodes:

Network nodes represent proteins

splice isoforms or post-translational modifications are collapsed, i.e. each node represents all the proteins produced by a single, protein-coding gene locus.

Node Color

colored nodes:
query proteins and first shell of interactors

white nodes:
second shell of interactors

Node Content

empty nodes:
proteins of unknown 3D structure

filled nodes:
a 3D structure is known or predicted

Edges:

Edges represent protein-protein associations

associations are meant to be specific and meaningful, i.e. proteins jointly contribute to a shared function; this does not necessarily mean they are physically binding to each other.

Known Interactions

from curated databases

experimentally determined

Predicted Interactions

gene neighborhood

gene fusions

gene co-occurrence

Others

textmining

co-expression

protein homology

Your Input:

Neighborhood

Gene Fusion

Cooccurrence

Coexpression

Experiments

Databases

Textmining

[Homology]

Score

scube3

Signal peptide, CUB domain, EGF-like 3. (1015 aa)

Predicted Functional Partners:

LOC101161266

0.814

mmp9

0.631

H2M348_ORYLA

0.552

arid4b

0.552

ogn

0.498

ENSORLP00000032656

0.472

LOC101156669

0.438

LOC101156910

0.438

coll

0.438

mmp2

0.438

Your Current Organism:

Oryzias latipes

NCBI taxonomy Id: 8090
Other names: Japanese medaka, Japanese rice fish, O. latipes, Poecilia latipes, medaka

Send network to Cytoscape

Export your current network:

... as a bitmap image:

download

file format is 'PNG': portable network graphic

... as a high-resolution bitmap:

download

same PNG format, but at higher resolution

... as a vector graphic:

download

SVG: scalable vector graphic - can be opened and edited in Illustrator, CorelDraw, Dia, etc

... as short tabular text output:

download

TSV: tab separated values - can be opened in Excel and Cytoscape (lists only one-way edges: A-B)

... as tabular text output:

download

TSV: tab separated values - can be opened in Excel (lists reciprocal edges: A-B,B-A)

... as an XML summary:

download

structured XML interaction data, according to the 'PSI-MI' data standard

... protein node degrees:

download

node degree of proteins in your network (given the current score cut-off)

... network coordinates:

download

a flat-file format describing the coordinates and colors of nodes in the network

... protein sequences:

download

MFA: multi-fasta format - containing the aminoacid sequences in the network

... protein annotations:

download

a tab-delimited file describing the names, domains and descriptions of proteins in your network

... functional annotations:

download

a tab-delimited file containing all known functional terms of protiens in your network

Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
ENSORLP00000032656	scube3	ENSORLP00000032656	ENSORLP00000016408	Uncharacterized protein.	Signal peptide, CUB domain, EGF-like 3.	0.472
H2M348_ORYLA	arid4b	ENSORLP00000012849	ENSORLP00000042709	Tudor-knot domain-containing protein.	Translocase of outer mitochondrial membrane 20.	0.599
H2M348_ORYLA	scube3	ENSORLP00000012849	ENSORLP00000016408	Tudor-knot domain-containing protein.	Signal peptide, CUB domain, EGF-like 3.	0.552
LOC101156669	mmp9	ENSORLP00000018114	ENSORLP00000007967	Matrix metallopeptidase 13b.	Uncharacterized protein.	0.528
LOC101156669	scube3	ENSORLP00000018114	ENSORLP00000016408	Matrix metallopeptidase 13b.	Signal peptide, CUB domain, EGF-like 3.	0.438
LOC101156910	mmp9	ENSORLP00000018189	ENSORLP00000007967	Matrix metallopeptidase 20a (enamelysin).	Uncharacterized protein.	0.482
LOC101156910	scube3	ENSORLP00000018189	ENSORLP00000016408	Matrix metallopeptidase 20a (enamelysin).	Signal peptide, CUB domain, EGF-like 3.	0.438
LOC101161266	ogn	ENSORLP00000038808	ENSORLP00000024687	Phosphodiesterase.	Osteoglycin, paralog a.	0.564
LOC101161266	scube3	ENSORLP00000038808	ENSORLP00000016408	Phosphodiesterase.	Signal peptide, CUB domain, EGF-like 3.	0.814
arid4b	H2M348_ORYLA	ENSORLP00000042709	ENSORLP00000012849	Translocase of outer mitochondrial membrane 20.	Tudor-knot domain-containing protein.	0.599
arid4b	scube3	ENSORLP00000042709	ENSORLP00000016408	Translocase of outer mitochondrial membrane 20.	Signal peptide, CUB domain, EGF-like 3.	0.552
coll	mmp9	ENSORLP00000025463	ENSORLP00000007967	Collagenase.	Uncharacterized protein.	0.599
coll	scube3	ENSORLP00000025463	ENSORLP00000016408	Collagenase.	Signal peptide, CUB domain, EGF-like 3.	0.438
mmp2	mmp9	ENSORLP00000040488	ENSORLP00000007967	Uncharacterized protein.	Uncharacterized protein.	0.512
mmp2	scube3	ENSORLP00000040488	ENSORLP00000016408	Uncharacterized protein.	Signal peptide, CUB domain, EGF-like 3.	0.438
mmp9	LOC101156669	ENSORLP00000007967	ENSORLP00000018114	Uncharacterized protein.	Matrix metallopeptidase 13b.	0.528
mmp9	LOC101156910	ENSORLP00000007967	ENSORLP00000018189	Uncharacterized protein.	Matrix metallopeptidase 20a (enamelysin).	0.482
mmp9	coll	ENSORLP00000007967	ENSORLP00000025463	Uncharacterized protein.	Collagenase.	0.599
mmp9	mmp2	ENSORLP00000007967	ENSORLP00000040488	Uncharacterized protein.	Uncharacterized protein.	0.512
mmp9	scube3	ENSORLP00000007967	ENSORLP00000016408	Uncharacterized protein.	Signal peptide, CUB domain, EGF-like 3.	0.631