(12 nodes) Mixed, incl. OCRE domain, and Alternative mRNA splicing, via spliceosome network (Columba livia)

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:
	RBM39	RNA binding motif protein 39, transcript variant X1. (522 aa)
	SUGP1	SURP and G patch domain containing 1. (638 aa)
	RBM6	RNA binding motif protein 6, transcript variant X1. (1181 aa)
	RBM5	RNA binding motif protein 5. (806 aa)
	HTATSF1	HIV-1 Tat specific factor 1. (435 aa)
	DHX9	DEAH (Asp-Glu-Ala-His) box helicase 9. (1229 aa)
	TCERG1L	Uncharacterized protein. (472 aa)
	DDX17	DEAD (Asp-Glu-Ala-Asp) box helicase 17; Belongs to the DEAD box helicase family. (689 aa)
	SON	SON DNA binding protein. (3982 aa)
	PRPF4B	Pre-mRNA processing factor 4B. (881 aa)
	A306_00013888	Keratin. (126 aa)
	DDX5	Putative ATP-dependent RNA helicase DDX5; Belongs to the DEAD box helicase family. (596 aa)

Your Current Organism:

Columba livia

NCBI taxonomy Id: 8932
Other names: C. livia, Columba domestica, Columba livia domestica, carrier pigeon, domestic pigeon, rock dove, rock pigeon

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 protiens in your network

Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
A306_00013888	HTATSF1	R7VTD3	A0A2I0M4M3	Keratin.	HIV-1 Tat specific factor 1.	0.502
A306_00013888	PRPF4B	R7VTD3	A0A2I0MWQ9	Keratin.	Pre-mRNA processing factor 4B.	0.435
A306_00013888	SUGP1	R7VTD3	A0A2I0LPV2	Keratin.	SURP and G patch domain containing 1.	0.432
A306_00013888	TCERG1L	R7VTD3	A0A2I0MEI7	Keratin.	Uncharacterized protein.	0.408
DDX17	DDX5	A0A2I0MJT5	R7VWE6	DEAD (Asp-Glu-Ala-Asp) box helicase 17; Belongs to the DEAD box helicase family.	Putative ATP-dependent RNA helicase DDX5; Belongs to the DEAD box helicase family.	0.848
DDX17	DHX9	A0A2I0MJT5	A0A2I0MC36	DEAD (Asp-Glu-Ala-Asp) box helicase 17; Belongs to the DEAD box helicase family.	DEAH (Asp-Glu-Ala-His) box helicase 9.	0.811
DDX17	HTATSF1	A0A2I0MJT5	A0A2I0M4M3	DEAD (Asp-Glu-Ala-Asp) box helicase 17; Belongs to the DEAD box helicase family.	HIV-1 Tat specific factor 1.	0.708
DDX17	PRPF4B	A0A2I0MJT5	A0A2I0MWQ9	DEAD (Asp-Glu-Ala-Asp) box helicase 17; Belongs to the DEAD box helicase family.	Pre-mRNA processing factor 4B.	0.698
DDX17	RBM39	A0A2I0MJT5	A0A2I0LNX2	DEAD (Asp-Glu-Ala-Asp) box helicase 17; Belongs to the DEAD box helicase family.	RNA binding motif protein 39, transcript variant X1.	0.729
DDX17	RBM5	A0A2I0MJT5	A0A2I0LSP1	DEAD (Asp-Glu-Ala-Asp) box helicase 17; Belongs to the DEAD box helicase family.	RNA binding motif protein 5.	0.426
DDX17	RBM6	A0A2I0MJT5	A0A2I0LRA7	DEAD (Asp-Glu-Ala-Asp) box helicase 17; Belongs to the DEAD box helicase family.	RNA binding motif protein 6, transcript variant X1.	0.426
DDX17	SON	A0A2I0MJT5	A0A2I0MSL5	DEAD (Asp-Glu-Ala-Asp) box helicase 17; Belongs to the DEAD box helicase family.	SON DNA binding protein.	0.409
DDX17	TCERG1L	A0A2I0MJT5	A0A2I0MEI7	DEAD (Asp-Glu-Ala-Asp) box helicase 17; Belongs to the DEAD box helicase family.	Uncharacterized protein.	0.570
DDX5	DDX17	R7VWE6	A0A2I0MJT5	Putative ATP-dependent RNA helicase DDX5; Belongs to the DEAD box helicase family.	DEAD (Asp-Glu-Ala-Asp) box helicase 17; Belongs to the DEAD box helicase family.	0.848
DDX5	DHX9	R7VWE6	A0A2I0MC36	Putative ATP-dependent RNA helicase DDX5; Belongs to the DEAD box helicase family.	DEAH (Asp-Glu-Ala-His) box helicase 9.	0.904
DDX5	HTATSF1	R7VWE6	A0A2I0M4M3	Putative ATP-dependent RNA helicase DDX5; Belongs to the DEAD box helicase family.	HIV-1 Tat specific factor 1.	0.724
DDX5	PRPF4B	R7VWE6	A0A2I0MWQ9	Putative ATP-dependent RNA helicase DDX5; Belongs to the DEAD box helicase family.	Pre-mRNA processing factor 4B.	0.685
DDX5	RBM39	R7VWE6	A0A2I0LNX2	Putative ATP-dependent RNA helicase DDX5; Belongs to the DEAD box helicase family.	RNA binding motif protein 39, transcript variant X1.	0.860
DDX5	RBM5	R7VWE6	A0A2I0LSP1	Putative ATP-dependent RNA helicase DDX5; Belongs to the DEAD box helicase family.	RNA binding motif protein 5.	0.525
DDX5	RBM6	R7VWE6	A0A2I0LRA7	Putative ATP-dependent RNA helicase DDX5; Belongs to the DEAD box helicase family.	RNA binding motif protein 6, transcript variant X1.	0.525