(14 nodes) Regulation of cytoplasmic translation network (Lates calcarifer)

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:
	LOC108898704	CCHC-type domain-containing protein. (202 aa)
	fmr1	Uncharacterized protein. (602 aa)
	CPEB4	Uncharacterized protein. (753 aa)
	LOC108900167	Uncharacterized protein. (166 aa)
	cpeb1	RRM domain-containing protein. (578 aa)
	LOC108878939	Uncharacterized protein. (764 aa)
	rbm24	RRM domain-containing protein. (232 aa)
	LOC108891635	RRM domain-containing protein. (236 aa)
	ENSLCAP00010050115	CCHC-type zinc finger, nucleic acid binding protein b. (166 aa)
	cpeb3	Uncharacterized protein. (765 aa)
	LOC108882817	Uncharacterized protein. (747 aa)
	Mettl3	Methyltransferase like 3; Belongs to the MT-A70-like family. (579 aa)
	dhx9	Uncharacterized protein. (1313 aa)
	dhx36	Uncharacterized protein. (1079 aa)

Your Current Organism:

Lates calcarifer

NCBI taxonomy Id: 8187
Other names: Asian seabass, Holocentrus calcarifer, L. calcarifer, barramundi, barramundi perch

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
LOC108878939	fmr1	ENSLCAP00010031717	ENSLCAP00010054622	Uncharacterized protein.	Uncharacterized protein.	0.442
LOC108898704	dhx9	ENSLCAP00010024315	ENSLCAP00010009225	CCHC-type domain-containing protein.	Uncharacterized protein.	0.504
Mettl3	fmr1	ENSLCAP00010013996	ENSLCAP00010054622	Methyltransferase like 3; Belongs to the MT-A70-like family.	Uncharacterized protein.	0.416
cpeb1	fmr1	ENSLCAP00010041066	ENSLCAP00010054622	RRM domain-containing protein.	Uncharacterized protein.	0.619
dhx36	dhx9	ENSLCAP00010005743	ENSLCAP00010009225	Uncharacterized protein.	Uncharacterized protein.	0.723
dhx9	LOC108898704	ENSLCAP00010009225	ENSLCAP00010024315	Uncharacterized protein.	CCHC-type domain-containing protein.	0.504
dhx9	dhx36	ENSLCAP00010009225	ENSLCAP00010005743	Uncharacterized protein.	Uncharacterized protein.	0.723
fmr1	LOC108878939	ENSLCAP00010054622	ENSLCAP00010031717	Uncharacterized protein.	Uncharacterized protein.	0.442
fmr1	Mettl3	ENSLCAP00010054622	ENSLCAP00010013996	Uncharacterized protein.	Methyltransferase like 3; Belongs to the MT-A70-like family.	0.416
fmr1	cpeb1	ENSLCAP00010054622	ENSLCAP00010041066	Uncharacterized protein.	RRM domain-containing protein.	0.619