(35 nodes) RmlC-like jelly roll fold network (Ciona intestinalis)

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:
	F6SYZ4_CIOIN	Cyclic nucleotide-binding domain-containing protein. (435 aa)
	LOC100179564	cAMP-dependent protein kinase type II regulatory subunit-like isoform X1. (394 aa)
	F6YIR3_CIOIN	JmjC domain-containing protein. (332 aa)
	F6WZV6_CIOIN	Cyclic nucleotide-binding domain-containing protein. (499 aa)
	LOC100184049	Uncharacterized protein LOC100184049 isoform X1. (1212 aa)
	F7ABC0_CIOIN	Cyclic nucleotide-binding domain-containing protein. (1164 aa)
	LOC100184124	cGMP-dependent protein kinase. (662 aa)
	LOC100180193	Uncharacterized protein LOC100180193 isoform X2. (585 aa)
	F7B6R3_CIOIN	Cyclic nucleotide-binding domain-containing protein. (190 aa)
	F6YHV1_CIOIN	Cyclic nucleotide-binding domain-containing protein. (200 aa)
	F6Z8U5_CIOIN	3-hydroxyanthranilate 3,4-dioxygenase; Catalyzes the oxidative ring opening of 3-hydroxyanthranilate to 2-amino-3-carboxymuconate semialdehyde, which spontaneously cyclizes to quinolinate. (281 aa)
	F6Y5C7_CIOIN	Uncharacterized protein. (441 aa)
	F6UU30_CIOIN	JmjC domain-containing protein. (298 aa)
	LOC100183249	1,2-dihydroxy-3-keto-5-methylthiopentene dioxygenase; Catalyzes the formation of formate and 2-keto-4- methylthiobutyrate (KMTB) from 1,2-dihydroxy-3-keto-5-methylthiopentene (DHK-MTPene). (181 aa)
	F6TAP2_CIOIN	Cyclic nucleotide-binding domain-containing protein. (564 aa)
	F7A4Y2_CIOIN	Uncharacterized protein. (591 aa)
	LOC100179626	Mannose-6-phosphate isomerase-like. (408 aa)
	F7BFC8_CIOIN	Cyclic nucleotide-binding domain-containing protein. (322 aa)
	F6YWA2_CIOIN	Cyclic nucleotide-binding domain-containing protein. (502 aa)
	F6RNR5_CIOIN	Uncharacterized protein. (947 aa)
	LOC100181237	jmjC domain-containing protein 7-like. (308 aa)
	LOC108950774	Cyclic nucleotide-binding domain-containing protein. (225 aa)
	H2XTZ7_CIOIN	Cyclic nucleotide-binding domain-containing protein. (193 aa)
	Ggcx	Uncharacterized protein. (354 aa)
	H2XN97_CIOIN	Uncharacterized protein. (200 aa)
	H2XMX5_CIOIN	Cyclic nucleotide-binding domain-containing protein. (366 aa)
	H2XLI9_CIOIN	Cyclic nucleotide-binding domain-containing protein. (508 aa)
	F6YRL0_CIOIN	Uncharacterized protein. (234 aa)
	F7A8H3_CIOIN	cGMP-dependent protein kinase. (677 aa)
	F6TEV5_CIOIN	Cysteine dioxygenase. (154 aa)
	LOC100185131	Lysine-specific demethylase 8-like isoform X1. (385 aa)
	F6SE21_CIOIN	Uncharacterized protein. (611 aa)
	LOC100186896	Uncharacterized protein. (791 aa)
	LOC100179599	Uncharacterized protein. (381 aa)
	LOC100179607	Uncharacterized protein. (611 aa)

Your Current Organism:

Ciona intestinalis

NCBI taxonomy Id: 7719
Other names: Ascidia intestinalis, C. intestinalis, sea vase, vase tunicate, yellow sea squirt

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
F6RNR5_CIOIN	LOC108950774	ENSCINP00000013452	ENSCINP00000034100	Uncharacterized protein.	Cyclic nucleotide-binding domain-containing protein.	0.828
F6SYZ4_CIOIN	F7BFC8_CIOIN	ENSCINP00000014322	ENSCINP00000011018	Cyclic nucleotide-binding domain-containing protein.	Cyclic nucleotide-binding domain-containing protein.	0.587
F6TAP2_CIOIN	F7BFC8_CIOIN	ENSCINP00000010344	ENSCINP00000011018	Cyclic nucleotide-binding domain-containing protein.	Cyclic nucleotide-binding domain-containing protein.	0.800
F6WZV6_CIOIN	F6YWA2_CIOIN	ENSCINP00000017729	ENSCINP00000012821	Cyclic nucleotide-binding domain-containing protein.	Cyclic nucleotide-binding domain-containing protein.	0.556
F6YHV1_CIOIN	F7BFC8_CIOIN	ENSCINP00000022727	ENSCINP00000011018	Cyclic nucleotide-binding domain-containing protein.	Cyclic nucleotide-binding domain-containing protein.	0.783
F6YWA2_CIOIN	F6WZV6_CIOIN	ENSCINP00000012821	ENSCINP00000017729	Cyclic nucleotide-binding domain-containing protein.	Cyclic nucleotide-binding domain-containing protein.	0.556
F7BFC8_CIOIN	F6SYZ4_CIOIN	ENSCINP00000011018	ENSCINP00000014322	Cyclic nucleotide-binding domain-containing protein.	Cyclic nucleotide-binding domain-containing protein.	0.587
F7BFC8_CIOIN	F6TAP2_CIOIN	ENSCINP00000011018	ENSCINP00000010344	Cyclic nucleotide-binding domain-containing protein.	Cyclic nucleotide-binding domain-containing protein.	0.800
F7BFC8_CIOIN	F6YHV1_CIOIN	ENSCINP00000011018	ENSCINP00000022727	Cyclic nucleotide-binding domain-containing protein.	Cyclic nucleotide-binding domain-containing protein.	0.783
LOC100179564	LOC100179599	ENSCINP00000014963	ENSCINP00000005345	cAMP-dependent protein kinase type II regulatory subunit-like isoform X1.	Uncharacterized protein.	0.567
LOC100179599	LOC100179564	ENSCINP00000005345	ENSCINP00000014963	Uncharacterized protein.	cAMP-dependent protein kinase type II regulatory subunit-like isoform X1.	0.567
LOC108950774	F6RNR5_CIOIN	ENSCINP00000034100	ENSCINP00000013452	Cyclic nucleotide-binding domain-containing protein.	Uncharacterized protein.	0.828