vps13a 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.

Knowledge-based Evidence

from curated databases

textmining

Assay-based Predictions

experimentally determined

co-expression

Genomic Predictions

gene neighborhood

gene co-occurrence

gene fusions

Your Input:

Neighborhood

Gene fusion

Co-occurrence

Co-expression

Experiments

Databases

Textmining

[Homology]

Score

vps13a

Vacuolar protein sorting 13 homolog A. (3155 aa)

Predicted Functional Partners:

sntb2

0.729

synj1

0.676

fmnl1

0.651

chtf18

0.630

nudcd1

0.602

rock1

0.595

greb1l

0.588

LOC101157110

0.587

LOC101169457

0.587

ENSORLP00000033705

0.572

Your Current Organism:

Oryzias latipes

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

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 proteins in your network

Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
ENSORLP00000033705	synj1	ENSORLP00000033705	ENSORLP00000045806	Spatacsin_C domain-containing protein.	Synaptojanin 1.	0.752
ENSORLP00000033705	vps13a	ENSORLP00000033705	ENSORLP00000007188	Spatacsin_C domain-containing protein.	Vacuolar protein sorting 13 homolog A.	0.572
LOC101157110	LOC101169457	ENSORLP00000004107	ENSORLP00000045936	Septin-type G domain-containing protein; Belongs to the TRAFAC class TrmE-Era-EngA-EngB-Septin-like GTPase superfamily. Septin GTPase family.	Septin 9a; Belongs to the TRAFAC class TrmE-Era-EngA-EngB-Septin-like GTPase superfamily. Septin GTPase family.	0.902
LOC101157110	fmnl1	ENSORLP00000004107	ENSORLP00000005641	Septin-type G domain-containing protein; Belongs to the TRAFAC class TrmE-Era-EngA-EngB-Septin-like GTPase superfamily. Septin GTPase family.	Formin-like 1a.	0.441
LOC101157110	sntb2	ENSORLP00000004107	ENSORLP00000042474	Septin-type G domain-containing protein; Belongs to the TRAFAC class TrmE-Era-EngA-EngB-Septin-like GTPase superfamily. Septin GTPase family.	Syntrophin, beta 2.	0.503
LOC101157110	vps13a	ENSORLP00000004107	ENSORLP00000007188	Septin-type G domain-containing protein; Belongs to the TRAFAC class TrmE-Era-EngA-EngB-Septin-like GTPase superfamily. Septin GTPase family.	Vacuolar protein sorting 13 homolog A.	0.587
LOC101169457	LOC101157110	ENSORLP00000045936	ENSORLP00000004107	Septin 9a; Belongs to the TRAFAC class TrmE-Era-EngA-EngB-Septin-like GTPase superfamily. Septin GTPase family.	Septin-type G domain-containing protein; Belongs to the TRAFAC class TrmE-Era-EngA-EngB-Septin-like GTPase superfamily. Septin GTPase family.	0.902
LOC101169457	fmnl1	ENSORLP00000045936	ENSORLP00000005641	Septin 9a; Belongs to the TRAFAC class TrmE-Era-EngA-EngB-Septin-like GTPase superfamily. Septin GTPase family.	Formin-like 1a.	0.441
LOC101169457	sntb2	ENSORLP00000045936	ENSORLP00000042474	Septin 9a; Belongs to the TRAFAC class TrmE-Era-EngA-EngB-Septin-like GTPase superfamily. Septin GTPase family.	Syntrophin, beta 2.	0.503
LOC101169457	vps13a	ENSORLP00000045936	ENSORLP00000007188	Septin 9a; Belongs to the TRAFAC class TrmE-Era-EngA-EngB-Septin-like GTPase superfamily. Septin GTPase family.	Vacuolar protein sorting 13 homolog A.	0.587
chtf18	vps13a	ENSORLP00000011024	ENSORLP00000007188	AAA domain-containing protein.	Vacuolar protein sorting 13 homolog A.	0.630
fmnl1	LOC101157110	ENSORLP00000005641	ENSORLP00000004107	Formin-like 1a.	Septin-type G domain-containing protein; Belongs to the TRAFAC class TrmE-Era-EngA-EngB-Septin-like GTPase superfamily. Septin GTPase family.	0.441
fmnl1	LOC101169457	ENSORLP00000005641	ENSORLP00000045936	Formin-like 1a.	Septin 9a; Belongs to the TRAFAC class TrmE-Era-EngA-EngB-Septin-like GTPase superfamily. Septin GTPase family.	0.441
fmnl1	sntb2	ENSORLP00000005641	ENSORLP00000042474	Formin-like 1a.	Syntrophin, beta 2.	0.827
fmnl1	vps13a	ENSORLP00000005641	ENSORLP00000007188	Formin-like 1a.	Vacuolar protein sorting 13 homolog A.	0.651
greb1l	rock1	ENSORLP00000035987	ENSORLP00000045337	GREB1 like retinoic acid receptor coactivator.	Rho-associated protein kinase; Protein kinase which is a key regulator of actin cytoskeleton and cell polarity.	0.715
greb1l	vps13a	ENSORLP00000035987	ENSORLP00000007188	GREB1 like retinoic acid receptor coactivator.	Vacuolar protein sorting 13 homolog A.	0.588
nudcd1	vps13a	ENSORLP00000009982	ENSORLP00000007188	NudC domain containing 1.	Vacuolar protein sorting 13 homolog A.	0.602
rock1	greb1l	ENSORLP00000045337	ENSORLP00000035987	Rho-associated protein kinase; Protein kinase which is a key regulator of actin cytoskeleton and cell polarity.	GREB1 like retinoic acid receptor coactivator.	0.715
rock1	vps13a	ENSORLP00000045337	ENSORLP00000007188	Rho-associated protein kinase; Protein kinase which is a key regulator of actin cytoskeleton and cell polarity.	Vacuolar protein sorting 13 homolog A.	0.595