(16 nodes) snRNA metabolic process network (Verticillium alfalfae)

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:
	VDBG_00345	Uncharacterized protein. (228 aa)
	VDBG_00603	Ribonucloprotein; Common component of the spliceosome and rRNA processing machinery; Belongs to the eukaryotic ribosomal protein eL8 family. (203 aa)
	VDBG_00700	Exosome complex exonuclease RRP40. (245 aa)
	VDBG_02195	Exosome complex exonuclease RRP43. (340 aa)
	VDBG_02016	Uncharacterized protein. (181 aa)
	VDBG_02627	Uncharacterized protein. (423 aa)
	VDBG_00262	Exosome complex exonuclease RRP4. (353 aa)
	VDBG_00274	Zinc knuckle domain-containing protein. (692 aa)
	VDBG_09932	Exosome complex exonuclease RRP41. (155 aa)
	VDBG_07395	Uncharacterized protein. (315 aa)
	VDBG_06740	Exosome complex exonuclease RRP45. (271 aa)
	VDBG_06085	Pre-mRNA-splicing factor ATP-dependent RNA helicase prp16. (1047 aa)
	VDBG_05847	RNase_PH domain-containing protein. (249 aa)
	VDBG_05221	Ribonuclease. (426 aa)
	VDBG_03680	RNase_PH domain-containing protein. (373 aa)
	VDBG_03613	3'-5' exonuclease domain-containing protein. (894 aa)

Your Current Organism:

Verticillium alfalfae

NCBI taxonomy Id: 526221
Other names: V. alfalfae VaMs.102, Verticillium alfalfae VaMs.102

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
VDBG_00262	VDBG_00345	C9S555	C9S5J1	Exosome complex exonuclease RRP4.	Uncharacterized protein.	0.974
VDBG_00262	VDBG_00603	C9S555	C9S6K4	Exosome complex exonuclease RRP4.	Ribonucloprotein; Common component of the spliceosome and rRNA processing machinery; Belongs to the eukaryotic ribosomal protein eL8 family.	0.503
VDBG_00262	VDBG_00700	C9S555	C9S6Y1	Exosome complex exonuclease RRP4.	Exosome complex exonuclease RRP40.	0.999
VDBG_00262	VDBG_02016	C9S555	C9SC23	Exosome complex exonuclease RRP4.	Uncharacterized protein.	0.999
VDBG_00262	VDBG_02195	C9S555	C9S9M3	Exosome complex exonuclease RRP4.	Exosome complex exonuclease RRP43.	0.999
VDBG_00262	VDBG_03613	C9S555	C9SGG4	Exosome complex exonuclease RRP4.	3'-5' exonuclease domain-containing protein.	0.412
VDBG_00262	VDBG_03680	C9S555	C9SGU9	Exosome complex exonuclease RRP4.	RNase_PH domain-containing protein.	0.999
VDBG_00262	VDBG_05847	C9S555	C9SLS3	Exosome complex exonuclease RRP4.	RNase_PH domain-containing protein.	0.999
VDBG_00262	VDBG_06740	C9S555	C9SPB5	Exosome complex exonuclease RRP4.	Exosome complex exonuclease RRP45.	0.999
VDBG_00262	VDBG_09932	C9S555	C9SYF7	Exosome complex exonuclease RRP4.	Exosome complex exonuclease RRP41.	0.999
VDBG_00274	VDBG_00700	C9S567	C9S6Y1	Zinc knuckle domain-containing protein.	Exosome complex exonuclease RRP40.	0.491
VDBG_00274	VDBG_02016	C9S567	C9SC23	Zinc knuckle domain-containing protein.	Uncharacterized protein.	0.558
VDBG_00274	VDBG_02195	C9S567	C9S9M3	Zinc knuckle domain-containing protein.	Exosome complex exonuclease RRP43.	0.554
VDBG_00274	VDBG_05847	C9S567	C9SLS3	Zinc knuckle domain-containing protein.	RNase_PH domain-containing protein.	0.528
VDBG_00274	VDBG_06740	C9S567	C9SPB5	Zinc knuckle domain-containing protein.	Exosome complex exonuclease RRP45.	0.595
VDBG_00274	VDBG_09932	C9S567	C9SYF7	Zinc knuckle domain-containing protein.	Exosome complex exonuclease RRP41.	0.559
VDBG_00345	VDBG_00262	C9S5J1	C9S555	Uncharacterized protein.	Exosome complex exonuclease RRP4.	0.974
VDBG_00345	VDBG_00603	C9S5J1	C9S6K4	Uncharacterized protein.	Ribonucloprotein; Common component of the spliceosome and rRNA processing machinery; Belongs to the eukaryotic ribosomal protein eL8 family.	0.574
VDBG_00345	VDBG_00700	C9S5J1	C9S6Y1	Uncharacterized protein.	Exosome complex exonuclease RRP40.	0.976
VDBG_00345	VDBG_02016	C9S5J1	C9SC23	Uncharacterized protein.	Uncharacterized protein.	0.967