(19 nodes) RNA polymerase network (Xiphophorus couchianus)

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:
	polr2i	DNA-directed RNA polymerase subunit; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Belongs to the archaeal rpoM/eukaryotic RPA12/RPB9/RPC11 RNA polymerase family. (126 aa)
	Polr2a	DNA-directed RNA polymerase subunit; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. (1788 aa)
	Polr2g	Polymerase (RNA) II (DNA directed) polypeptide G-like. (201 aa)
	znrd1	DNA-directed RNA polymerase subunit; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Belongs to the archaeal rpoM/eukaryotic RPA12/RPB9/RPC11 RNA polymerase family. (118 aa)
	polr2h	DNA-directed RNA polymerases I, II, and III subunit RPABC3; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Common component of RNA polymerases I, II and III which synthesize ribosomal RNA precursors, mRNA precursors and many functional non- coding RNAs, and small RNAs, such as 5S rRNA and tRNAs, respectively. (150 aa)
	polr3e	Polymerase (RNA) III (DNA directed) polypeptide E. (686 aa)
	polr1b	DNA-directed RNA polymerase subunit beta; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. (1132 aa)
	Polr3a	DNA-directed RNA polymerase subunit; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. (651 aa)
	Polr3f	DNA-directed RNA polymerase III subunit RPC6; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Specific peripheric component of RNA polymerase III which synthesizes small RNAs, such as 5S rRNA and tRNAs; Belongs to the eukaryotic RPC34/RPC39 RNA polymerase subunit family. (275 aa)
	polr3k	DNA-directed RNA polymerase subunit; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Belongs to the archaeal rpoM/eukaryotic RPA12/RPB9/RPC11 RNA polymerase family. (108 aa)
	ENSXCOP00000015512	RNA polymerase I and III subunit D. (130 aa)
	Polr2d	Polymerase (RNA) II (DNA directed) polypeptide D. (104 aa)
	Polr1c	RNA polymerase I and III subunit C. (348 aa)
	POLR2B	RNA polymerase II subunit B. (366 aa)
	polr2f	Polymerase (RNA) II (DNA directed) polypeptide F. (127 aa)
	Polr3g	Uncharacterized protein. (90 aa)
	twistnb	TWIST neighbor. (357 aa)
	Polr3b	DNA-directed RNA polymerase subunit beta; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. (1092 aa)
	polr2c	Polymerase (RNA) II (DNA directed) polypeptide C. (275 aa)

Your Current Organism:

Xiphophorus couchianus

NCBI taxonomy Id: 32473
Other names: Limia couchiana, Monterrey platyfish, X. couchianus

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
ENSXCOP00000015512	POLR2B	ENSXCOP00000015512	ENSXCOP00000019507	RNA polymerase I and III subunit D.	RNA polymerase II subunit B.	0.935
ENSXCOP00000015512	Polr1c	ENSXCOP00000015512	ENSXCOP00000018849	RNA polymerase I and III subunit D.	RNA polymerase I and III subunit C.	0.999
ENSXCOP00000015512	Polr2d	ENSXCOP00000015512	ENSXCOP00000016790	RNA polymerase I and III subunit D.	Polymerase (RNA) II (DNA directed) polypeptide D.	0.679
ENSXCOP00000015512	Polr2g	ENSXCOP00000015512	ENSXCOP00000002529	RNA polymerase I and III subunit D.	Polymerase (RNA) II (DNA directed) polypeptide G-like.	0.620
ENSXCOP00000015512	Polr3a	ENSXCOP00000015512	ENSXCOP00000007949	RNA polymerase I and III subunit D.	DNA-directed RNA polymerase subunit; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates.	0.999
ENSXCOP00000015512	Polr3b	ENSXCOP00000015512	ENSXCOP00000027423	RNA polymerase I and III subunit D.	DNA-directed RNA polymerase subunit beta; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates.	0.999
ENSXCOP00000015512	Polr3f	ENSXCOP00000015512	ENSXCOP00000013604	RNA polymerase I and III subunit D.	DNA-directed RNA polymerase III subunit RPC6; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Specific peripheric component of RNA polymerase III which synthesizes small RNAs, such as 5S rRNA and tRNAs; Belongs to the eukaryotic RPC34/RPC39 RNA polymerase subunit family.	0.999
ENSXCOP00000015512	Polr3g	ENSXCOP00000015512	ENSXCOP00000022177	RNA polymerase I and III subunit D.	Uncharacterized protein.	0.997
ENSXCOP00000015512	polr1b	ENSXCOP00000015512	ENSXCOP00000007920	RNA polymerase I and III subunit D.	DNA-directed RNA polymerase subunit beta; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates.	0.998
ENSXCOP00000015512	polr2c	ENSXCOP00000015512	ENSXCOP00000027810	RNA polymerase I and III subunit D.	Polymerase (RNA) II (DNA directed) polypeptide C.	0.998
ENSXCOP00000015512	polr2f	ENSXCOP00000015512	ENSXCOP00000021360	RNA polymerase I and III subunit D.	Polymerase (RNA) II (DNA directed) polypeptide F.	0.999
ENSXCOP00000015512	polr2h	ENSXCOP00000015512	ENSXCOP00000004434	RNA polymerase I and III subunit D.	DNA-directed RNA polymerases I, II, and III subunit RPABC3; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Common component of RNA polymerases I, II and III which synthesize ribosomal RNA precursors, mRNA precursors and many functional non- coding RNAs, and small RNAs, such as 5S rRNA and tRNAs, respectively.	0.999
ENSXCOP00000015512	polr2i	ENSXCOP00000015512	ENSXCOP00000001423	RNA polymerase I and III subunit D.	DNA-directed RNA polymerase subunit; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Belongs to the archaeal rpoM/eukaryotic RPA12/RPB9/RPC11 RNA polymerase family.	0.860
ENSXCOP00000015512	polr3e	ENSXCOP00000015512	ENSXCOP00000007595	RNA polymerase I and III subunit D.	Polymerase (RNA) III (DNA directed) polypeptide E.	0.997
ENSXCOP00000015512	polr3k	ENSXCOP00000015512	ENSXCOP00000014652	RNA polymerase I and III subunit D.	DNA-directed RNA polymerase subunit; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Belongs to the archaeal rpoM/eukaryotic RPA12/RPB9/RPC11 RNA polymerase family.	0.998
ENSXCOP00000015512	twistnb	ENSXCOP00000015512	ENSXCOP00000027044	RNA polymerase I and III subunit D.	TWIST neighbor.	0.999
ENSXCOP00000015512	znrd1	ENSXCOP00000015512	ENSXCOP00000004366	RNA polymerase I and III subunit D.	DNA-directed RNA polymerase subunit; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Belongs to the archaeal rpoM/eukaryotic RPA12/RPB9/RPC11 RNA polymerase family.	0.999
POLR2B	ENSXCOP00000015512	ENSXCOP00000019507	ENSXCOP00000015512	RNA polymerase II subunit B.	RNA polymerase I and III subunit D.	0.935
POLR2B	Polr1c	ENSXCOP00000019507	ENSXCOP00000018849	RNA polymerase II subunit B.	RNA polymerase I and III subunit C.	0.953
POLR2B	Polr2a	ENSXCOP00000019507	ENSXCOP00000002261	RNA polymerase II subunit B.	DNA-directed RNA polymerase subunit; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates.	0.977