clns1a protein (Oryzias latipes) - STRING interaction network

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.

Knowledge-based Evidence

from curated databases

textmining

Assay-based Predictions

experimentally determined

co-expression

Genomic Predictions

gene neighborhood

gene co-occurrence

gene fusions

Your Input:

Neighborhood

Gene Fusion

Cooccurrence

Coexpression

Experiments

Databases

Textmining

[Homology]

Score

clns1a

Chloride channel, nucleotide-sensitive, 1A. (245 aa)

Predicted Functional Partners:

WDR77

0.999

prmt5

0.999

snrpd1

0.998

snrpe

0.998

snrpd2

0.998

snrpd3

0.985

lsm2

0.975

lsm3

0.971

lsm6

0.968

snrpg

0.952

Your Current Organism:

Oryzias latipes

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

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
WDR77	clns1a	ENSORLP00000000652	ENSORLP00000002257	WD repeat domain 77.	Chloride channel, nucleotide-sensitive, 1A.	0.999
WDR77	lsm3	ENSORLP00000000652	ENSORLP00000042855	WD repeat domain 77.	U6 snRNA-associated Sm-like protein LSm3; Binds specifically to the 3'-terminal U-tract of U6 snRNA.	0.753
WDR77	prmt5	ENSORLP00000000652	ENSORLP00000015467	WD repeat domain 77.	Protein arginine N-methyltransferase 5; Arginine methyltransferase that can both catalyze the formation of omega-N monomethylarginine (MMA) and symmetrical dimethylarginine (sDMA); Belongs to the class I-like SAM-binding methyltransferase superfamily.	0.999
WDR77	snrpd1	ENSORLP00000000652	ENSORLP00000015671	WD repeat domain 77.	Small nuclear ribonucleoprotein Sm D1; Essential for pre-mRNA splicing. Implicated in the formation of stable, biologically active snRNP structures. Belongs to the snRNP core protein family.	0.897
WDR77	snrpd2	ENSORLP00000000652	ENSORLP00000043777	WD repeat domain 77.	Small nuclear ribonucleoprotein Sm D2.	0.876
WDR77	snrpd3	ENSORLP00000000652	ENSORLP00000030977	WD repeat domain 77.	Small nuclear ribonucleoprotein Sm D3.	0.978
WDR77	snrpe	ENSORLP00000000652	ENSORLP00000029192	WD repeat domain 77.	Small nuclear ribonucleoprotein E; Associated with the spliceosome snRNP U1, U2, U4/U6 and U5. Belongs to the snRNP Sm proteins family.	0.863
WDR77	snrpg	ENSORLP00000000652	ENSORLP00000030086	WD repeat domain 77.	Small nuclear ribonucleoprotein G.	0.461
clns1a	WDR77	ENSORLP00000002257	ENSORLP00000000652	Chloride channel, nucleotide-sensitive, 1A.	WD repeat domain 77.	0.999
clns1a	lsm2	ENSORLP00000002257	ENSORLP00000041242	Chloride channel, nucleotide-sensitive, 1A.	U6 snRNA-associated Sm-like protein LSm2; Binds specifically to the 3'-terminal U-tract of U6 snRNA.	0.975
clns1a	lsm3	ENSORLP00000002257	ENSORLP00000042855	Chloride channel, nucleotide-sensitive, 1A.	U6 snRNA-associated Sm-like protein LSm3; Binds specifically to the 3'-terminal U-tract of U6 snRNA.	0.971
clns1a	lsm6	ENSORLP00000002257	ENSORLP00000038911	Chloride channel, nucleotide-sensitive, 1A.	LSM6 homolog, U6 small nuclear RNA and mRNA degradation associated.	0.968
clns1a	prmt5	ENSORLP00000002257	ENSORLP00000015467	Chloride channel, nucleotide-sensitive, 1A.	Protein arginine N-methyltransferase 5; Arginine methyltransferase that can both catalyze the formation of omega-N monomethylarginine (MMA) and symmetrical dimethylarginine (sDMA); Belongs to the class I-like SAM-binding methyltransferase superfamily.	0.999
clns1a	snrpd1	ENSORLP00000002257	ENSORLP00000015671	Chloride channel, nucleotide-sensitive, 1A.	Small nuclear ribonucleoprotein Sm D1; Essential for pre-mRNA splicing. Implicated in the formation of stable, biologically active snRNP structures. Belongs to the snRNP core protein family.	0.998
clns1a	snrpd2	ENSORLP00000002257	ENSORLP00000043777	Chloride channel, nucleotide-sensitive, 1A.	Small nuclear ribonucleoprotein Sm D2.	0.998
clns1a	snrpd3	ENSORLP00000002257	ENSORLP00000030977	Chloride channel, nucleotide-sensitive, 1A.	Small nuclear ribonucleoprotein Sm D3.	0.985
clns1a	snrpe	ENSORLP00000002257	ENSORLP00000029192	Chloride channel, nucleotide-sensitive, 1A.	Small nuclear ribonucleoprotein E; Associated with the spliceosome snRNP U1, U2, U4/U6 and U5. Belongs to the snRNP Sm proteins family.	0.998
clns1a	snrpg	ENSORLP00000002257	ENSORLP00000030086	Chloride channel, nucleotide-sensitive, 1A.	Small nuclear ribonucleoprotein G.	0.952
lsm2	clns1a	ENSORLP00000041242	ENSORLP00000002257	U6 snRNA-associated Sm-like protein LSm2; Binds specifically to the 3'-terminal U-tract of U6 snRNA.	Chloride channel, nucleotide-sensitive, 1A.	0.975
lsm2	lsm3	ENSORLP00000041242	ENSORLP00000042855	U6 snRNA-associated Sm-like protein LSm2; Binds specifically to the 3'-terminal U-tract of U6 snRNA.	U6 snRNA-associated Sm-like protein LSm3; Binds specifically to the 3'-terminal U-tract of U6 snRNA.	0.999