(11 nodes) mRNA stabilization network (Ciona intestinalis)

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:
	H2XJJ8_CIOIN	RRM domain-containing protein. (229 aa)
	F6YGK4_CIOIN	Uncharacterized protein. (591 aa)
	LOC100187055	SEFIR domain-containing protein. (513 aa)
	F6X3C5_CIOIN	HA2 domain-containing protein. (413 aa)
	F6X3A4_CIOIN	Uncharacterized protein. (594 aa)
	F6QXN6_CIOIN	RRM domain-containing protein. (369 aa)
	F6VA91_CIOIN	Uncharacterized protein. (126 aa)
	F6YUX9_CIOIN	RRM domain-containing protein. (134 aa)
	F6UV55_CIOIN	Uncharacterized protein. (242 aa)
	H2Y1J5_CIOIN	Uncharacterized protein. (448 aa)
	H2Y1J7_CIOIN	RRM domain-containing protein. (173 aa)

Your Current Organism:

Ciona intestinalis

NCBI taxonomy Id: 7719
Other names: Ascidia intestinalis, C. intestinalis, sea vase, vase tunicate, yellow sea squirt

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 proteins in your network

Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
F6VA91_CIOIN	F6YUX9_CIOIN	ENSCINP00000022570	ENSCINP00000026103	Uncharacterized protein.	RRM domain-containing protein.	0.405
F6X3A4_CIOIN	F6X3C5_CIOIN	ENSCINP00000015974	ENSCINP00000015971	Uncharacterized protein.	HA2 domain-containing protein.	0.944
F6X3A4_CIOIN	H2Y1J7_CIOIN	ENSCINP00000015974	ENSCINP00000035781	Uncharacterized protein.	RRM domain-containing protein.	0.410
F6X3C5_CIOIN	F6X3A4_CIOIN	ENSCINP00000015971	ENSCINP00000015974	HA2 domain-containing protein.	Uncharacterized protein.	0.944
F6X3C5_CIOIN	H2Y1J7_CIOIN	ENSCINP00000015971	ENSCINP00000035781	HA2 domain-containing protein.	RRM domain-containing protein.	0.410
F6YUX9_CIOIN	F6VA91_CIOIN	ENSCINP00000026103	ENSCINP00000022570	RRM domain-containing protein.	Uncharacterized protein.	0.405
F6YUX9_CIOIN	H2Y1J7_CIOIN	ENSCINP00000026103	ENSCINP00000035781	RRM domain-containing protein.	RRM domain-containing protein.	0.475
H2Y1J7_CIOIN	F6X3A4_CIOIN	ENSCINP00000035781	ENSCINP00000015974	RRM domain-containing protein.	Uncharacterized protein.	0.410
H2Y1J7_CIOIN	F6X3C5_CIOIN	ENSCINP00000035781	ENSCINP00000015971	RRM domain-containing protein.	HA2 domain-containing protein.	0.410
H2Y1J7_CIOIN	F6YUX9_CIOIN	ENSCINP00000035781	ENSCINP00000026103	RRM domain-containing protein.	RRM domain-containing protein.	0.475