(53 nodes) Spliceosomal snRNP complex, and Leucine-rich repeat-containing protein 51 network (Poecilia reticulata)

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:
	SART1	Spliceosome associated factor 1, recruiter of U4/U6.U5 tri-snRNP. (756 aa)
	snrpa	Small nuclear ribonucleoprotein polypeptide A. (273 aa)
	clg13h19orf54	Zgc:153119. (295 aa)
	snrpa1	Small nuclear ribonucleoprotein polypeptide A. (254 aa)
	sf3b2	Splicing factor 3b, subunit 2. (853 aa)
	sf1	Splicing factor 1. (676 aa)
	Snrpd2	Small nuclear ribonucleoprotein Sm D2. (115 aa)
	snrpb2	Small nuclear ribonucleoprotein polypeptide B2. (243 aa)
	snrnp40	Small nuclear ribonucleoprotein 40 (U5). (347 aa)
	snrpg	Small nuclear ribonucleoprotein G. (76 aa)
	ddx46	DEAD (Asp-Glu-Ala-Asp) box polypeptide 46. (1071 aa)
	snrnp70	Small nuclear ribonucleoprotein 70 (U1). (466 aa)
	LSM8	U6 snRNA-associated Sm-like protein LSm8; Plays role in pre-mRNA splicing as component of the U4/U6-U5 tri-snRNP complex that is involved in spliceosome assembly, and as component of the precatalytic spliceosome (spliceosome B complex). The heptameric LSM2-8 complex binds specifically to the 3'-terminal U-tract of U6 snRNA. (111 aa)
	ddx23	DEAD (Asp-Glu-Ala-Asp) box polypeptide 23. (805 aa)
	snrpd1	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. (119 aa)
	snrpd3	Small nuclear ribonucleoprotein Sm D3. (122 aa)
	prpf31	PRP31 pre-mRNA processing factor 31 homolog (yeast). (508 aa)
	htatsf1	HIV-1 Tat specific factor 1. (444 aa)
	EFTUD2	Elongation factor Tu GTP binding domain containing 2. (389 aa)
	ENSPREP00000012415	EFG_C domain-containing protein. (178 aa)
	snrnp200	Small nuclear ribonucleoprotein 200 (U5). (2136 aa)
	sf3b5	Splicing factor 3B subunit 5; Belongs to the SF3B5 family. (86 aa)
	lsm1	U6 snRNA-associated Sm-like protein LSm1; Probably involved with other LSm subunits in the general process of degradation of mRNAs. (133 aa)
	ddx42	DEAD (Asp-Glu-Ala-Asp) box helicase 42. (941 aa)
	sf3a1	Splicing factor 3a, subunit 1. (786 aa)
	sf3b4	Splicing factor 3b, subunit 4. (403 aa)
	lsm4	U6 snRNA-associated Sm-like protein LSm4; Binds specifically to the 3'-terminal U-tract of U6 snRNA. (188 aa)
	SNRPC	U1 small nuclear ribonucleoprotein C; Component of the spliceosomal U1 snRNP, which is essential for recognition of the pre-mRNA 5' splice-site and the subsequent assembly of the spliceosome. SNRPC/U1-C is directly involved in initial 5' splice-site recognition for both constitutive and regulated alternative splicing. The interaction with the 5' splice-site seems to precede base-pairing between the pre-mRNA and the U1 snRNA. Stimulates commitment or early (E) complex formation by stabilizing the base pairing of the 5' end of the U1 snRNA and the 5' splice-site region. Belongs to the U1 [...] (180 aa)
	sf3a3	Splicing factor 3a, subunit 3. (502 aa)
	ENSPREP00000022980	Small nuclear ribonucleoprotein-associated protein. (217 aa)
	lsm2	U6 snRNA-associated Sm-like protein LSm2; Binds specifically to the 3'-terminal U-tract of U6 snRNA. (93 aa)
	lsm7	LSM7 homolog, U6 small nuclear RNA and mRNA degradation associated. (130 aa)
	Prpf4	WD_REPEATS_REGION domain-containing protein. (184 aa)
	ppih	Peptidyl-prolyl cis-trans isomerase; PPIases accelerate the folding of proteins. It catalyzes the cis-trans isomerization of proline imidic peptide bonds in oligopeptides; Belongs to the cyclophilin-type PPIase family. (177 aa)
	prpf3	PRP3 pre-mRNA processing factor 3 homolog (yeast). (691 aa)
	sf3a2	Splicing factor 3a, subunit 2. (294 aa)
	prpf6	PRP6 pre-mRNA processing factor 6 homolog (S. cerevisiae). (1016 aa)
	snrpe	Small nuclear ribonucleoprotein E; Associated with the spliceosome snRNP U1, U2, U4/U6 and U5. Belongs to the snRNP Sm proteins family. (92 aa)
	txnl4a	Thioredoxin-like protein; Plays role in pre-mRNA splicing. Belongs to the DIM1 family. (142 aa)
	sf3b6	Splicing factor 3b, subunit 6. (231 aa)
	LOC103474478	Leucine rich repeat containing 51. (194 aa)
	sf3b1	Splicing factor 3b, subunit 1. (1315 aa)
	sf3b3	Splicing factor 3b, subunit 3. (1014 aa)
	phf5a	PHD finger protein 5A. (110 aa)
	txnl4b	Thioredoxin-like protein; Plays role in pre-mRNA splicing. Belongs to the DIM1 family. (149 aa)
	prpf8	Pre-mRNA processing factor 8. (2358 aa)
	ENSPREP00000032360	Ig-like domain-containing protein. (169 aa)
	sart3	Spliceosome associated factor 3, U4/U6 recycling protein. (947 aa)
	lsm5	U6 snRNA-associated Sm-like protein LSm5; Plays a role in U6 snRNP assembly and function. Binds to the 3' end of U6 snRNA. (62 aa)
	lsm3	U6 snRNA-associated Sm-like protein LSm3; Binds specifically to the 3'-terminal U-tract of U6 snRNA. (102 aa)
	Snrpf	Small nuclear ribonucleoprotein polypeptide F. (87 aa)
	LOC103481307	Uncharacterized protein. (183 aa)
	lsm6	LSM6 homolog, U6 small nuclear RNA and mRNA degradation associated. (80 aa)

Your Current Organism:

Poecilia reticulata

NCBI taxonomy Id: 8081
Other names: Acanthophacelus reticulata, P. reticulata, Poecilia (Acanthophacelus) reticulata, Poecilia latipinna reticulata, guppy

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
EFTUD2	ENSPREP00000012415	ENSPREP00000012394	ENSPREP00000012415	Elongation factor Tu GTP binding domain containing 2.	EFG_C domain-containing protein.	0.900
EFTUD2	ENSPREP00000022980	ENSPREP00000012394	ENSPREP00000022980	Elongation factor Tu GTP binding domain containing 2.	Small nuclear ribonucleoprotein-associated protein.	0.918
EFTUD2	ENSPREP00000032360	ENSPREP00000012394	ENSPREP00000032360	Elongation factor Tu GTP binding domain containing 2.	Ig-like domain-containing protein.	0.824
EFTUD2	LOC103474478	ENSPREP00000012394	ENSPREP00000028778	Elongation factor Tu GTP binding domain containing 2.	Leucine rich repeat containing 51.	0.710
EFTUD2	LOC103481307	ENSPREP00000012394	ENSPREP00000033681	Elongation factor Tu GTP binding domain containing 2.	Uncharacterized protein.	0.710
EFTUD2	LSM8	ENSPREP00000012394	ENSPREP00000008083	Elongation factor Tu GTP binding domain containing 2.	U6 snRNA-associated Sm-like protein LSm8; Plays role in pre-mRNA splicing as component of the U4/U6-U5 tri-snRNP complex that is involved in spliceosome assembly, and as component of the precatalytic spliceosome (spliceosome B complex). The heptameric LSM2-8 complex binds specifically to the 3'-terminal U-tract of U6 snRNA.	0.927
EFTUD2	Prpf4	ENSPREP00000012394	ENSPREP00000025096	Elongation factor Tu GTP binding domain containing 2.	WD_REPEATS_REGION domain-containing protein.	0.951
EFTUD2	SART1	ENSPREP00000012394	ENSPREP00000000100	Elongation factor Tu GTP binding domain containing 2.	Spliceosome associated factor 1, recruiter of U4/U6.U5 tri-snRNP.	0.947
EFTUD2	SNRPC	ENSPREP00000012394	ENSPREP00000019263	Elongation factor Tu GTP binding domain containing 2.	U1 small nuclear ribonucleoprotein C; Component of the spliceosomal U1 snRNP, which is essential for recognition of the pre-mRNA 5' splice-site and the subsequent assembly of the spliceosome. SNRPC/U1-C is directly involved in initial 5' splice-site recognition for both constitutive and regulated alternative splicing. The interaction with the 5' splice-site seems to precede base-pairing between the pre-mRNA and the U1 snRNA. Stimulates commitment or early (E) complex formation by stabilizing the base pairing of the 5' end of the U1 snRNA and the 5' splice-site region. Belongs to the U1 [...]	0.753
EFTUD2	Snrpd2	ENSPREP00000012394	ENSPREP00000005996	Elongation factor Tu GTP binding domain containing 2.	Small nuclear ribonucleoprotein Sm D2.	0.968
EFTUD2	Snrpf	ENSPREP00000012394	ENSPREP00000033403	Elongation factor Tu GTP binding domain containing 2.	Small nuclear ribonucleoprotein polypeptide F.	0.973
EFTUD2	clg13h19orf54	ENSPREP00000012394	ENSPREP00000001761	Elongation factor Tu GTP binding domain containing 2.	Zgc:153119.	0.819
EFTUD2	ddx23	ENSPREP00000012394	ENSPREP00000010375	Elongation factor Tu GTP binding domain containing 2.	DEAD (Asp-Glu-Ala-Asp) box polypeptide 23.	0.979
EFTUD2	ddx42	ENSPREP00000012394	ENSPREP00000014684	Elongation factor Tu GTP binding domain containing 2.	DEAD (Asp-Glu-Ala-Asp) box helicase 42.	0.479
EFTUD2	ddx46	ENSPREP00000012394	ENSPREP00000007936	Elongation factor Tu GTP binding domain containing 2.	DEAD (Asp-Glu-Ala-Asp) box polypeptide 46.	0.650
EFTUD2	lsm2	ENSPREP00000012394	ENSPREP00000024467	Elongation factor Tu GTP binding domain containing 2.	U6 snRNA-associated Sm-like protein LSm2; Binds specifically to the 3'-terminal U-tract of U6 snRNA.	0.910
EFTUD2	lsm3	ENSPREP00000012394	ENSPREP00000033180	Elongation factor Tu GTP binding domain containing 2.	U6 snRNA-associated Sm-like protein LSm3; Binds specifically to the 3'-terminal U-tract of U6 snRNA.	0.836
EFTUD2	lsm4	ENSPREP00000012394	ENSPREP00000016701	Elongation factor Tu GTP binding domain containing 2.	U6 snRNA-associated Sm-like protein LSm4; Binds specifically to the 3'-terminal U-tract of U6 snRNA.	0.914
EFTUD2	lsm5	ENSPREP00000012394	ENSPREP00000033135	Elongation factor Tu GTP binding domain containing 2.	U6 snRNA-associated Sm-like protein LSm5; Plays a role in U6 snRNP assembly and function. Binds to the 3' end of U6 snRNA.	0.909
EFTUD2	lsm6	ENSPREP00000012394	ENSPREP00000034316	Elongation factor Tu GTP binding domain containing 2.	LSM6 homolog, U6 small nuclear RNA and mRNA degradation associated.	0.903