LIN28B protein (Astyanax mexicanus) - 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.

Known Interactions

from curated databases

experimentally determined

Predicted Interactions

gene neighborhood

gene fusions

gene co-occurrence

Others

textmining

co-expression

protein homology

Your Input:

Neighborhood

Gene Fusion

Cooccurrence

Coexpression

Experiments

Databases

Textmining

[Homology]

Score

LIN28B

Lin-28 homolog B. (244 aa)

Predicted Functional Partners:

POLR2F

0.575

snrpd3

0.565

Ncbp2

0.562

rps11

0.559

Snrpf

0.542

snrpg

0.534

POLR2B

0.531

polr2c

0.512

mrps12

0.511

rps23

0.511

Your Current Organism:

Astyanax mexicanus

NCBI taxonomy Id: 7994
Other names: A. mexicanus, Mexican tetra, blind cave fish

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
LIN28B	Ncbp2	ENSAMXP00000001462	ENSAMXP00000039041	Lin-28 homolog B.	Nuclear cap-binding protein subunit 2; Component of the cap-binding complex (CBC), which binds co- transcriptionally to the 5' cap of pre-mRNAs and is involved in various processes such as pre-mRNA splicing, translation regulation, nonsense- mediated mRNA decay, RNA-mediated gene silencing (RNAi) by microRNAs (miRNAs) and mRNA export. The CBC complex is involved in mRNA export from the nucleus, leading to the recruitment of the mRNA export machinery to the 5' end of mRNA and to mRNA export in a 5' to 3' direction through the nuclear pore. The CBC complex is also involved in mediating U [...]	0.562
LIN28B	POLR2B	ENSAMXP00000001462	ENSAMXP00000004147	Lin-28 homolog B.	DNA-directed RNA polymerase subunit beta; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates.	0.531
LIN28B	POLR2F	ENSAMXP00000001462	ENSAMXP00000013174	Lin-28 homolog B.	RNA polymerase II subunit F.	0.575
LIN28B	Snrpf	ENSAMXP00000001462	ENSAMXP00000007625	Lin-28 homolog B.	Small nuclear ribonucleoprotein polypeptide F.	0.542
LIN28B	mrps12	ENSAMXP00000001462	ENSAMXP00000026650	Lin-28 homolog B.	Mitochondrial ribosomal protein S12; Belongs to the universal ribosomal protein uS12 family.	0.511
LIN28B	polr2c	ENSAMXP00000001462	ENSAMXP00000013167	Lin-28 homolog B.	Polymerase (RNA) II (DNA directed) polypeptide C.	0.512
LIN28B	rps11	ENSAMXP00000001462	ENSAMXP00000048863	Lin-28 homolog B.	Ribosomal protein S11; Belongs to the universal ribosomal protein uS17 family.	0.559
LIN28B	rps23	ENSAMXP00000001462	ENSAMXP00000050928	Lin-28 homolog B.	Ribosomal protein S23; Belongs to the universal ribosomal protein uS12 family.	0.511
LIN28B	snrpd3	ENSAMXP00000001462	ENSAMXP00000036274	Lin-28 homolog B.	Small nuclear ribonucleoprotein Sm D3.	0.565
LIN28B	snrpg	ENSAMXP00000001462	ENSAMXP00000030512	Lin-28 homolog B.	Small nuclear ribonucleoprotein G.	0.534
Ncbp2	LIN28B	ENSAMXP00000039041	ENSAMXP00000001462	Nuclear cap-binding protein subunit 2; Component of the cap-binding complex (CBC), which binds co- transcriptionally to the 5' cap of pre-mRNAs and is involved in various processes such as pre-mRNA splicing, translation regulation, nonsense- mediated mRNA decay, RNA-mediated gene silencing (RNAi) by microRNAs (miRNAs) and mRNA export. The CBC complex is involved in mRNA export from the nucleus, leading to the recruitment of the mRNA export machinery to the 5' end of mRNA and to mRNA export in a 5' to 3' direction through the nuclear pore. The CBC complex is also involved in mediating U [...]	Lin-28 homolog B.	0.562
Ncbp2	POLR2B	ENSAMXP00000039041	ENSAMXP00000004147	Nuclear cap-binding protein subunit 2; Component of the cap-binding complex (CBC), which binds co- transcriptionally to the 5' cap of pre-mRNAs and is involved in various processes such as pre-mRNA splicing, translation regulation, nonsense- mediated mRNA decay, RNA-mediated gene silencing (RNAi) by microRNAs (miRNAs) and mRNA export. The CBC complex is involved in mRNA export from the nucleus, leading to the recruitment of the mRNA export machinery to the 5' end of mRNA and to mRNA export in a 5' to 3' direction through the nuclear pore. The CBC complex is also involved in mediating U [...]	DNA-directed RNA polymerase subunit beta; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates.	0.842
Ncbp2	Snrpf	ENSAMXP00000039041	ENSAMXP00000007625	Nuclear cap-binding protein subunit 2; Component of the cap-binding complex (CBC), which binds co- transcriptionally to the 5' cap of pre-mRNAs and is involved in various processes such as pre-mRNA splicing, translation regulation, nonsense- mediated mRNA decay, RNA-mediated gene silencing (RNAi) by microRNAs (miRNAs) and mRNA export. The CBC complex is involved in mRNA export from the nucleus, leading to the recruitment of the mRNA export machinery to the 5' end of mRNA and to mRNA export in a 5' to 3' direction through the nuclear pore. The CBC complex is also involved in mediating U [...]	Small nuclear ribonucleoprotein polypeptide F.	0.993
Ncbp2	polr2c	ENSAMXP00000039041	ENSAMXP00000013167	Nuclear cap-binding protein subunit 2; Component of the cap-binding complex (CBC), which binds co- transcriptionally to the 5' cap of pre-mRNAs and is involved in various processes such as pre-mRNA splicing, translation regulation, nonsense- mediated mRNA decay, RNA-mediated gene silencing (RNAi) by microRNAs (miRNAs) and mRNA export. The CBC complex is involved in mRNA export from the nucleus, leading to the recruitment of the mRNA export machinery to the 5' end of mRNA and to mRNA export in a 5' to 3' direction through the nuclear pore. The CBC complex is also involved in mediating U [...]	Polymerase (RNA) II (DNA directed) polypeptide C.	0.922
Ncbp2	rps11	ENSAMXP00000039041	ENSAMXP00000048863	Nuclear cap-binding protein subunit 2; Component of the cap-binding complex (CBC), which binds co- transcriptionally to the 5' cap of pre-mRNAs and is involved in various processes such as pre-mRNA splicing, translation regulation, nonsense- mediated mRNA decay, RNA-mediated gene silencing (RNAi) by microRNAs (miRNAs) and mRNA export. The CBC complex is involved in mRNA export from the nucleus, leading to the recruitment of the mRNA export machinery to the 5' end of mRNA and to mRNA export in a 5' to 3' direction through the nuclear pore. The CBC complex is also involved in mediating U [...]	Ribosomal protein S11; Belongs to the universal ribosomal protein uS17 family.	0.785
Ncbp2	snrpd3	ENSAMXP00000039041	ENSAMXP00000036274	Nuclear cap-binding protein subunit 2; Component of the cap-binding complex (CBC), which binds co- transcriptionally to the 5' cap of pre-mRNAs and is involved in various processes such as pre-mRNA splicing, translation regulation, nonsense- mediated mRNA decay, RNA-mediated gene silencing (RNAi) by microRNAs (miRNAs) and mRNA export. The CBC complex is involved in mRNA export from the nucleus, leading to the recruitment of the mRNA export machinery to the 5' end of mRNA and to mRNA export in a 5' to 3' direction through the nuclear pore. The CBC complex is also involved in mediating U [...]	Small nuclear ribonucleoprotein Sm D3.	0.986
Ncbp2	snrpg	ENSAMXP00000039041	ENSAMXP00000030512	Nuclear cap-binding protein subunit 2; Component of the cap-binding complex (CBC), which binds co- transcriptionally to the 5' cap of pre-mRNAs and is involved in various processes such as pre-mRNA splicing, translation regulation, nonsense- mediated mRNA decay, RNA-mediated gene silencing (RNAi) by microRNAs (miRNAs) and mRNA export. The CBC complex is involved in mRNA export from the nucleus, leading to the recruitment of the mRNA export machinery to the 5' end of mRNA and to mRNA export in a 5' to 3' direction through the nuclear pore. The CBC complex is also involved in mediating U [...]	Small nuclear ribonucleoprotein G.	0.996
POLR2B	LIN28B	ENSAMXP00000004147	ENSAMXP00000001462	DNA-directed RNA polymerase subunit beta; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates.	Lin-28 homolog B.	0.531
POLR2B	Ncbp2	ENSAMXP00000004147	ENSAMXP00000039041	DNA-directed RNA polymerase subunit beta; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates.	Nuclear cap-binding protein subunit 2; Component of the cap-binding complex (CBC), which binds co- transcriptionally to the 5' cap of pre-mRNAs and is involved in various processes such as pre-mRNA splicing, translation regulation, nonsense- mediated mRNA decay, RNA-mediated gene silencing (RNAi) by microRNAs (miRNAs) and mRNA export. The CBC complex is involved in mRNA export from the nucleus, leading to the recruitment of the mRNA export machinery to the 5' end of mRNA and to mRNA export in a 5' to 3' direction through the nuclear pore. The CBC complex is also involved in mediating U [...]	0.842
POLR2B	POLR2F	ENSAMXP00000004147	ENSAMXP00000013174	DNA-directed RNA polymerase subunit beta; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates.	RNA polymerase II subunit F.	0.999