(45 nodes) Nuclear-transcribed mRNA catabolic process, nonsense-mediated decay network (Vombatus ursinus)

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:
	ENSVURP00010028091	eIF3_N domain-containing protein; Belongs to the eIF-3 subunit E family. (228 aa)
	EIF4A3	Uncharacterized protein; Belongs to the DEAD box helicase family. (411 aa)
	SMG7	SMG7 nonsense mediated mRNA decay factor. (1083 aa)
	NCBP1	MIF4G domain-containing protein. (794 aa)
	SMG8	Uncharacterized protein. (994 aa)
	PYM1	Mago-bind domain-containing protein. (247 aa)
	ENSVURP00010028050	Uncharacterized protein. (127 aa)
	ENSVURP00010027390	annotation not available (3659 aa)
	ENSVURP00010024865	Uncharacterized protein. (456 aa)
	ENSVURP00010000265	Uncharacterized protein. (53 aa)
	ENSVURP00010024728	annotation not available (156 aa)
	LOC114024774	Uncharacterized protein. (147 aa)
	LOC114031499	Uncharacterized protein. (534 aa)
	ENSVURP00010023494	eIF3_N domain-containing protein; Belongs to the eIF-3 subunit E family. (187 aa)
	LOC114031469	Nuclear cap-binding protein subunit 2; Component of the cap-binding complex (CBC), which binds co- transcriptionally to the 5' cap of pre-mRNAs and is involved in various processes such as pre-mRNA splicing, translation regulation, nonsense- mediated mRNA decay, RNA-mediated gene silencing (RNAi) by microRNAs (miRNAs) and mRNA export. The CBC complex is involved in mRNA export from the nucleus, leading to the recruitment of the mRNA export machinery to the 5' end of mRNA and to mRNA export in a 5' to 3' direction through the nuclear pore. The CBC complex is also involved in mediating U [...] (156 aa)
	NCBP2	Nuclear cap-binding protein subunit 2; Component of the cap-binding complex (CBC), which binds co- transcriptionally to the 5' cap of pre-mRNAs and is involved in various processes such as pre-mRNA splicing, translation regulation, nonsense- mediated mRNA decay, RNA-mediated gene silencing (RNAi) by microRNAs (miRNAs) and mRNA export. The CBC complex is involved in mRNA export from the nucleus, leading to the recruitment of the mRNA export machinery to the 5' end of mRNA and to mRNA export in a 5' to 3' direction through the nuclear pore. The CBC complex is also involved in mediating U [...] (157 aa)
	UPF1	UPF1 RNA helicase and ATPase. (1129 aa)
	UPF3B	Smg4_UPF3 domain-containing protein. (568 aa)
	HELZ2	Uncharacterized protein. (2879 aa)
	SMG5	PINc domain-containing protein. (1017 aa)
	UPF2	Uncharacterized protein. (1271 aa)
	CTIF	MIF4G domain-containing protein. (557 aa)
	LOC114043133	RNA-binding protein 8A; Core component of the splicing-dependent multiprotein exon junction complex (EJC) deposited at splice junctions on mRNAs. (174 aa)
	ENSVURP00010001779	Smg4_UPF3 domain-containing protein. (133 aa)
	ENSVURP00010001787	Uncharacterized protein. (171 aa)
	ENSVURP00010001802	annotation not available (174 aa)
	SKIV2L	Uncharacterized protein. (1249 aa)
	ENSVURP00010005221	Uncharacterized protein. (148 aa)
	CASC3	Btz domain-containing protein. (759 aa)
	LOC114052505	Uncharacterized protein; Belongs to the PI3/PI4-kinase family. (3659 aa)
	ENSVURP00010016499	Uncharacterized protein. (133 aa)
	PNRC2	Uncharacterized protein. (140 aa)
	DCP1B	mRNA_decap_C domain-containing protein. (677 aa)
	ENSVURP00010008337	Smg4_UPF3 domain-containing protein. (148 aa)
	ENSVURP00010008342	annotation not available (171 aa)
	ENSVURP00010008441	Uncharacterized protein. (118 aa)
	DCP2	Nudix hydrolase domain-containing protein. (422 aa)
	SMG6	SMG6 nonsense mediated mRNA decay factor. (1407 aa)
	EIF3E	Eukaryotic translation initiation factor 3 subunit E; Component of the eukaryotic translation initiation factor 3 (eIF-3) complex, which is required for several steps in the initiation of protein synthesis. The eIF-3 complex associates with the 40S ribosome and facilitates the recruitment of eIF-1, eIF-1A, eIF- 2:GTP:methionyl-tRNAi and eIF-5 to form the 43S pre-initiation complex (43S PIC). The eIF-3 complex stimulates mRNA recruitment to the 43S PIC and scanning of the mRNA for AUG recognition. The eIF-3 complex is also required for disassembly and recycling of post-termination ribos [...] (352 aa)
	ENSVURP00010010745	eIF3_N domain-containing protein. (55 aa)
	SMG9	SMG9 nonsense mediated mRNA decay factor. (523 aa)
	ETF1	eRF1_1 domain-containing protein. (437 aa)
	PARN	R3H domain-containing protein. (638 aa)
	RNPS1	RRM domain-containing protein. (305 aa)
	DHX34	Uncharacterized protein. (1147 aa)

Your Current Organism:

Vombatus ursinus

NCBI taxonomy Id: 29139
Other names: V. ursinus, coarse-haired wombat, common wombat

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
CASC3	DCP1B	ENSVURP00010006722	ENSVURP00010008038	Btz domain-containing protein.	mRNA_decap_C domain-containing protein.	0.733
CASC3	DHX34	ENSVURP00010006722	ENSVURP00010029711	Btz domain-containing protein.	Uncharacterized protein.	0.927
CASC3	EIF4A3	ENSVURP00010006722	ENSVURP00010012846	Btz domain-containing protein.	Uncharacterized protein; Belongs to the DEAD box helicase family.	0.999
CASC3	ENSVURP00010000265	ENSVURP00010006722	ENSVURP00010000265	Btz domain-containing protein.	Uncharacterized protein.	0.707
CASC3	ENSVURP00010001779	ENSVURP00010006722	ENSVURP00010001779	Btz domain-containing protein.	Smg4_UPF3 domain-containing protein.	0.966
CASC3	ENSVURP00010001787	ENSVURP00010006722	ENSVURP00010001787	Btz domain-containing protein.	Uncharacterized protein.	0.972
CASC3	ENSVURP00010001802	ENSVURP00010006722	ENSVURP00010001802	Btz domain-containing protein.	annotation not available	0.996
CASC3	ENSVURP00010005221	ENSVURP00010006722	ENSVURP00010005221	Btz domain-containing protein.	Uncharacterized protein.	0.985
CASC3	ENSVURP00010008337	ENSVURP00010006722	ENSVURP00010008337	Btz domain-containing protein.	Smg4_UPF3 domain-containing protein.	0.966
CASC3	ENSVURP00010008342	ENSVURP00010006722	ENSVURP00010008342	Btz domain-containing protein.	annotation not available	0.972
CASC3	ENSVURP00010008441	ENSVURP00010006722	ENSVURP00010008441	Btz domain-containing protein.	Uncharacterized protein.	0.985
CASC3	ENSVURP00010016499	ENSVURP00010006722	ENSVURP00010016499	Btz domain-containing protein.	Uncharacterized protein.	0.760
CASC3	ENSVURP00010024728	ENSVURP00010006722	ENSVURP00010024728	Btz domain-containing protein.	annotation not available	0.720
CASC3	ENSVURP00010028050	ENSVURP00010006722	ENSVURP00010028050	Btz domain-containing protein.	Uncharacterized protein.	0.985
CASC3	LOC114024774	ENSVURP00010006722	ENSVURP00010024458	Btz domain-containing protein.	Uncharacterized protein.	0.985
CASC3	LOC114031469	ENSVURP00010006722	ENSVURP00010023366	Btz domain-containing protein.	Nuclear cap-binding protein subunit 2; Component of the cap-binding complex (CBC), which binds co- transcriptionally to the 5' cap of pre-mRNAs and is involved in various processes such as pre-mRNA splicing, translation regulation, nonsense- mediated mRNA decay, RNA-mediated gene silencing (RNAi) by microRNAs (miRNAs) and mRNA export. The CBC complex is involved in mRNA export from the nucleus, leading to the recruitment of the mRNA export machinery to the 5' end of mRNA and to mRNA export in a 5' to 3' direction through the nuclear pore. The CBC complex is also involved in mediating U [...]	0.720
CASC3	LOC114043133	ENSVURP00010006722	ENSVURP00010000425	Btz domain-containing protein.	RNA-binding protein 8A; Core component of the splicing-dependent multiprotein exon junction complex (EJC) deposited at splice junctions on mRNAs.	0.996
CASC3	NCBP1	ENSVURP00010006722	ENSVURP00010015652	Btz domain-containing protein.	MIF4G domain-containing protein.	0.849
CASC3	NCBP2	ENSVURP00010006722	ENSVURP00010022896	Btz domain-containing protein.	Nuclear cap-binding protein subunit 2; Component of the cap-binding complex (CBC), which binds co- transcriptionally to the 5' cap of pre-mRNAs and is involved in various processes such as pre-mRNA splicing, translation regulation, nonsense- mediated mRNA decay, RNA-mediated gene silencing (RNAi) by microRNAs (miRNAs) and mRNA export. The CBC complex is involved in mRNA export from the nucleus, leading to the recruitment of the mRNA export machinery to the 5' end of mRNA and to mRNA export in a 5' to 3' direction through the nuclear pore. The CBC complex is also involved in mediating U [...]	0.720
CASC3	PNRC2	ENSVURP00010006722	ENSVURP00010030248	Btz domain-containing protein.	Uncharacterized protein.	0.710