(24 nodes) Photoreceptor cell outer segment organization network (Oryzias latipes)

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:
	kif7	Kinesin family member 7; Belongs to the TRAFAC class myosin-kinesin ATPase superfamily. Kinesin family. (1354 aa)
	bbs4	Bardet-Biedl syndrome 4. (535 aa)
	VANGL2	Vang-like protein. (525 aa)
	LOC101171355	Uncharacterized protein. (343 aa)
	arl13b	ADP-ribosylation factor-like 13b. (398 aa)
	crb1	Crumbs cell polarity complex component 1. (1325 aa)
	H2LZ82_ORYLA	Uncharacterized protein. (708 aa)
	eys	Uncharacterized protein. (3018 aa)
	LOC101156666	Uncharacterized protein. (1426 aa)
	rp2	Protein XRP2; Acts as a GTPase-activating protein (GAP) for tubulin in concert with tubulin-specific chaperone C, but does not enhance tubulin heterodimerization. (366 aa)
	LOC101158810	Peripherin 2-like a. (366 aa)
	prkci	Protein kinase C; Belongs to the protein kinase superfamily. AGC Ser/Thr protein kinase family. PKC subfamily. (554 aa)
	prph2	Peripherin 2a (retinal degeneration, slow). (344 aa)
	ttc26	Tetratricopeptide repeat domain 26. (557 aa)
	LOC105357406	Uncharacterized protein. (360 aa)
	LOC101163696	Uncharacterized protein. (2368 aa)
	ENSORLP00000029691	Uncharacterized protein. (1961 aa)
	ahi1	Abelson helper integration site 1. (854 aa)
	LOC105357236	Photoreceptor cilium actin regulator 2. (817 aa)
	kiaa0586	Uncharacterized protein. (1314 aa)
	pcare	Uncharacterized protein. (1124 aa)
	crb2	Uncharacterized protein. (1464 aa)
	ift140	Intraflagellar transport 140 homolog (Chlamydomonas). (1442 aa)
	nphp4	Uncharacterized protein. (1491 aa)

Your Current Organism:

Oryzias latipes

NCBI taxonomy Id: 8090
Other names: Japanese medaka, Japanese rice fish, O. latipes, Poecilia latipes, medaka

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
ahi1	arl13b	ENSORLP00000031130	ENSORLP00000007979	Abelson helper integration site 1.	ADP-ribosylation factor-like 13b.	0.565
ahi1	nphp4	ENSORLP00000031130	ENSORLP00000045422	Abelson helper integration site 1.	Uncharacterized protein.	0.563
arl13b	ahi1	ENSORLP00000007979	ENSORLP00000031130	ADP-ribosylation factor-like 13b.	Abelson helper integration site 1.	0.565
arl13b	bbs4	ENSORLP00000007979	ENSORLP00000002011	ADP-ribosylation factor-like 13b.	Bardet-Biedl syndrome 4.	0.404
arl13b	ift140	ENSORLP00000007979	ENSORLP00000042361	ADP-ribosylation factor-like 13b.	Intraflagellar transport 140 homolog (Chlamydomonas).	0.400
arl13b	nphp4	ENSORLP00000007979	ENSORLP00000045422	ADP-ribosylation factor-like 13b.	Uncharacterized protein.	0.636
bbs4	arl13b	ENSORLP00000002011	ENSORLP00000007979	Bardet-Biedl syndrome 4.	ADP-ribosylation factor-like 13b.	0.404
bbs4	ift140	ENSORLP00000002011	ENSORLP00000042361	Bardet-Biedl syndrome 4.	Intraflagellar transport 140 homolog (Chlamydomonas).	0.607
bbs4	nphp4	ENSORLP00000002011	ENSORLP00000045422	Bardet-Biedl syndrome 4.	Uncharacterized protein.	0.486
bbs4	ttc26	ENSORLP00000002011	ENSORLP00000024776	Bardet-Biedl syndrome 4.	Tetratricopeptide repeat domain 26.	0.653
ift140	arl13b	ENSORLP00000042361	ENSORLP00000007979	Intraflagellar transport 140 homolog (Chlamydomonas).	ADP-ribosylation factor-like 13b.	0.400
ift140	bbs4	ENSORLP00000042361	ENSORLP00000002011	Intraflagellar transport 140 homolog (Chlamydomonas).	Bardet-Biedl syndrome 4.	0.607
ift140	nphp4	ENSORLP00000042361	ENSORLP00000045422	Intraflagellar transport 140 homolog (Chlamydomonas).	Uncharacterized protein.	0.600
ift140	ttc26	ENSORLP00000042361	ENSORLP00000024776	Intraflagellar transport 140 homolog (Chlamydomonas).	Tetratricopeptide repeat domain 26.	0.922
nphp4	ahi1	ENSORLP00000045422	ENSORLP00000031130	Uncharacterized protein.	Abelson helper integration site 1.	0.563
nphp4	arl13b	ENSORLP00000045422	ENSORLP00000007979	Uncharacterized protein.	ADP-ribosylation factor-like 13b.	0.636
nphp4	bbs4	ENSORLP00000045422	ENSORLP00000002011	Uncharacterized protein.	Bardet-Biedl syndrome 4.	0.486
nphp4	ift140	ENSORLP00000045422	ENSORLP00000042361	Uncharacterized protein.	Intraflagellar transport 140 homolog (Chlamydomonas).	0.600
nphp4	rp2	ENSORLP00000045422	ENSORLP00000020082	Uncharacterized protein.	Protein XRP2; Acts as a GTPase-activating protein (GAP) for tubulin in concert with tubulin-specific chaperone C, but does not enhance tubulin heterodimerization.	0.506
rp2	nphp4	ENSORLP00000020082	ENSORLP00000045422	Protein XRP2; Acts as a GTPase-activating protein (GAP) for tubulin in concert with tubulin-specific chaperone C, but does not enhance tubulin heterodimerization.	Uncharacterized protein.	0.506