(65 nodes) Catalytic step 2 spliceosome network (Oreochromis niloticus)

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:
	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. (110 aa)
	rbmx	RNA binding motif protein X-linked. (391 aa)
	gpatch1	G patch domain containing 1. (992 aa)
	WDR25	WD repeat domain 25. (503 aa)
	lg14h19orf54	Zgc:153119. (298 aa)
	snrpd3	Small nuclear ribonucleoprotein Sm D3. (127 aa)
	Cwc22	MI domain-containing protein. (1025 aa)
	mtrex	Mtr4 exosome RNA helicase. (1037 aa)
	prpf8	Pre-mRNA processing factor 8. (2350 aa)
	srrm1	Serine/arginine repetitive matrix 1. (867 aa)
	bcas2	BCAS2 pre-mRNA processing factor. (225 aa)
	sf3a3	Splicing factor 3a, subunit 3. (501 aa)
	snrnp200	Small nuclear ribonucleoprotein 200 (U5). (2136 aa)
	sf3a1	Splicing factor 3a, subunit 1. (785 aa)
	Snrpa1	Small nuclear ribonucleoprotein polypeptide A. (291 aa)
	rbm22	RNA binding motif protein 22. (427 aa)
	sf3b2	Splicing factor 3b, subunit 2. (871 aa)
	zcchc8	Zinc finger, CCHC domain containing 8. (789 aa)
	cdc40	Cell division cycle 40 homolog (S. cerevisiae). (581 aa)
	sf3b1	Splicing factor 3b, subunit 1. (1311 aa)
	ess2	Ess-2 splicing factor homolog. (476 aa)
	ppil1	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. (202 aa)
	cwc27	CWC27 spliceosome associated cyclophilin. (482 aa)
	dhx8	DEAH (Asp-Glu-Ala-His) box polypeptide 8. (1213 aa)
	I3KR78_ORENI	Sorting nexin 14. (629 aa)
	lsm2	U6 snRNA-associated Sm-like protein LSm2; Binds specifically to the 3'-terminal U-tract of U6 snRNA. (89 aa)
	SART1	Spliceosome associated factor 1, recruiter of U4/U6.U5 tri-snRNP. (769 aa)
	LOC100704258	U6 snRNA-associated Sm-like protein LSm3; Binds specifically to the 3'-terminal U-tract of U6 snRNA. (102 aa)
	wdr83	WD repeat domain containing 83. (319 aa)
	ppwd1	Peptidylprolyl isomerase domain and WD repeat containing 1. (643 aa)
	prpf6	PRP6 pre-mRNA processing factor 6 homolog (S. cerevisiae). (1070 aa)
	dhx34	DEAH (Asp-Glu-Ala-His) box polypeptide 34. (1172 aa)
	ddx23	DEAD (Asp-Glu-Ala-Asp) box polypeptide 23. (834 aa)
	lsm7	LSM7 homolog, U6 small nuclear RNA and mRNA degradation associated. (103 aa)
	I3J012_ORENI	Heterogeneous nuclear ribonucleoprotein M. (679 aa)
	snw1	SNW domain containing 1. (536 aa)
	ENSONIP00000000466	LSM3 homolog, U6 small nuclear RNA and mRNA degradation associated. (107 aa)
	I3IUQ0_ORENI	ISY1 splicing factor homolog. (250 aa)
	DDX41	DEAD-box helicase 41. (614 aa)
	ppil3	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. (167 aa)
	sf3b6	Splicing factor 3b, subunit 6. (125 aa)
	ppil2	Peptidylprolyl isomerase (cyclophilin)-like 2. (538 aa)
	syf2	SYF2 pre-mRNA-splicing factor. (239 aa)
	ENSONIP00000075817	annotation not available (114 aa)
	dhx35	DEAH-box helicase 35. (706 aa)
	crnkl1	Crooked neck pre-mRNA splicing factor 1. (758 aa)
	snrpe	Small nuclear ribonucleoprotein E. (92 aa)
	sf3a2	Splicing factor 3a, subunit 2. (294 aa)
	xab2	XPA binding protein 2. (854 aa)
	dhx38	DEAH (Asp-Glu-Ala-His) box polypeptide 38. (1261 aa)
	prpf4b	Pre-mRNA processing factor 4Bb. (1020 aa)
	aqr	Aquarius intron-binding spliceosomal factor. (1473 aa)
	pnn	Pinin, desmosome associated protein. (668 aa)
	ENSONIP00000052157	annotation not available (201 aa)
	snrnp40	Small nuclear ribonucleoprotein 40 (U5). (347 aa)
	ppie	Peptidyl-prolyl cis-trans isomerase E; Catalyzes the cis-trans isomerization of proline imidic peptide bonds in proteins; Belongs to the cyclophilin-type PPIase family. PPIase E subfamily. (309 aa)
	snrpd2	Small nuclear ribonucleoprotein Sm D2. (118 aa)
	eftud2	Elongation factor Tu GTP binding domain containing 2. (1011 aa)
	LOC100693900	Heterogeneous nuclear ribonucleoprotein R. (631 aa)
	snrpb	Small nuclear ribonucleoprotein-associated protein. (256 aa)
	LOC100696647	Synaptotagmin binding, cytoplasmic RNA interacting protein, like. (567 aa)
	cwc15	CWC15 spliceosome associated protein homolog. (237 aa)
	Snrpg	Small nuclear ribonucleoprotein G. (76 aa)
	plrg1	Pleiotropic regulator 1. (513 aa)
	Snrpf	Small nuclear ribonucleoprotein F. (85 aa)

Your Current Organism:

Oreochromis niloticus

NCBI taxonomy Id: 8128
Other names: Nile tilapia, O. niloticus, Oreochromis nilotica, Tilapia nilotica

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
Cwc22	DDX41	ENSONIP00000008688	ENSONIP00000069776	MI domain-containing protein.	DEAD-box helicase 41.	0.665
Cwc22	ENSONIP00000052157	ENSONIP00000008688	ENSONIP00000052157	MI domain-containing protein.	annotation not available	0.892
Cwc22	I3IUQ0_ORENI	ENSONIP00000008688	ENSONIP00000000341	MI domain-containing protein.	ISY1 splicing factor homolog.	0.927
Cwc22	SART1	ENSONIP00000008688	ENSONIP00000026585	MI domain-containing protein.	Spliceosome associated factor 1, recruiter of U4/U6.U5 tri-snRNP.	0.430
Cwc22	Snrpa1	ENSONIP00000008688	ENSONIP00000014349	MI domain-containing protein.	Small nuclear ribonucleoprotein polypeptide A.	0.912
Cwc22	Snrpf	ENSONIP00000008688	ENSONIP00000068044	MI domain-containing protein.	Small nuclear ribonucleoprotein F.	0.844
Cwc22	Snrpg	ENSONIP00000008688	ENSONIP00000064463	MI domain-containing protein.	Small nuclear ribonucleoprotein G.	0.842
Cwc22	WDR25	ENSONIP00000008688	ENSONIP00000004471	MI domain-containing protein.	WD repeat domain 25.	0.961
Cwc22	aqr	ENSONIP00000008688	ENSONIP00000051878	MI domain-containing protein.	Aquarius intron-binding spliceosomal factor.	0.852
Cwc22	bcas2	ENSONIP00000008688	ENSONIP00000011614	MI domain-containing protein.	BCAS2 pre-mRNA processing factor.	0.630
Cwc22	cdc40	ENSONIP00000008688	ENSONIP00000016887	MI domain-containing protein.	Cell division cycle 40 homolog (S. cerevisiae).	0.999
Cwc22	crnkl1	ENSONIP00000008688	ENSONIP00000072834	MI domain-containing protein.	Crooked neck pre-mRNA splicing factor 1.	0.977
Cwc22	cwc15	ENSONIP00000008688	ENSONIP00000064198	MI domain-containing protein.	CWC15 spliceosome associated protein homolog.	0.931
Cwc22	cwc27	ENSONIP00000008688	ENSONIP00000019396	MI domain-containing protein.	CWC27 spliceosome associated cyclophilin.	0.990
Cwc22	ddx23	ENSONIP00000008688	ENSONIP00000039690	MI domain-containing protein.	DEAD (Asp-Glu-Ala-Asp) box polypeptide 23.	0.771
Cwc22	dhx34	ENSONIP00000008688	ENSONIP00000038932	MI domain-containing protein.	DEAH (Asp-Glu-Ala-His) box polypeptide 34.	0.916
Cwc22	dhx35	ENSONIP00000008688	ENSONIP00000075139	MI domain-containing protein.	DEAH-box helicase 35.	0.916
Cwc22	dhx38	ENSONIP00000008688	ENSONIP00000048005	MI domain-containing protein.	DEAH (Asp-Glu-Ala-His) box polypeptide 38.	0.993
Cwc22	dhx8	ENSONIP00000008688	ENSONIP00000022980	MI domain-containing protein.	DEAH (Asp-Glu-Ala-His) box polypeptide 8.	0.916
Cwc22	eftud2	ENSONIP00000008688	ENSONIP00000055002	MI domain-containing protein.	Elongation factor Tu GTP binding domain containing 2.	0.994