(12 nodes) (2022) MiR-34bc play a role in early sex differentiation of Amur sturgeon, Acipenser schrenckii. network (Oryzias latipes)

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:
	coll	Collagenase. (470 aa)
	sox9	HMG box domain-containing protein. (476 aa)
	ar-alpha	Uncharacterized protein. (687 aa)
	LOC101168921	Actin, cytoplasmic 1, N-terminally processed; Actin is a highly conserved protein that polymerizes to produce filaments that form cross-linked networks in the cytoplasm of cells. Actin exists in both monomeric (G-actin) and polymeric (F-actin) forms, both forms playing key functions, such as cell motility and contraction. In addition to their role in the cytoplasmic cytoskeleton, G- and F-actin also localize in the nucleus, and regulate gene transcription and motility and repair of damaged DNA. (410 aa)
	LOC100049233	Androgen receptor beta subtype. (744 aa)
	cyp1a	Cytochrome P450 1A1; Cytochromes P450 are a group of heme-thiolate monooxygenases. They oxidize a variety of structurally unrelated compounds, including steroids, fatty acids, and xenobiotics. (521 aa)
	pxdn	Peroxidasin. (1481 aa)
	dmy	Doublesex- and mab-3-related transcription factor 1; Transcription factor that acts both as a transcription. (283 aa)
	scp3	Cor1 domain-containing protein. (253 aa)
	actb	Actin, cytoplasmic 1. (434 aa)
	LOC101174359	Cor1 domain-containing protein. (214 aa)
	dazl	RRM domain-containing protein. (217 aa)

Your Current Organism:

Oryzias latipes

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

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
LOC100049233	ar-alpha	ENSORLP00000011941	ENSORLP00000010323	Androgen receptor beta subtype.	Uncharacterized protein.	0.908
LOC100049233	dmy	ENSORLP00000011941	ENSORLP00000025381	Androgen receptor beta subtype.	Doublesex- and mab-3-related transcription factor 1; Transcription factor that acts both as a transcription.	0.568
LOC100049233	sox9	ENSORLP00000011941	ENSORLP00000009985	Androgen receptor beta subtype.	HMG box domain-containing protein.	0.481
LOC101168921	cyp1a	ENSORLP00000011676	ENSORLP00000018073	Actin, cytoplasmic 1, N-terminally processed; Actin is a highly conserved protein that polymerizes to produce filaments that form cross-linked networks in the cytoplasm of cells. Actin exists in both monomeric (G-actin) and polymeric (F-actin) forms, both forms playing key functions, such as cell motility and contraction. In addition to their role in the cytoplasmic cytoskeleton, G- and F-actin also localize in the nucleus, and regulate gene transcription and motility and repair of damaged DNA.	Cytochrome P450 1A1; Cytochromes P450 are a group of heme-thiolate monooxygenases. They oxidize a variety of structurally unrelated compounds, including steroids, fatty acids, and xenobiotics.	0.451
LOC101168921	dmy	ENSORLP00000011676	ENSORLP00000025381	Actin, cytoplasmic 1, N-terminally processed; Actin is a highly conserved protein that polymerizes to produce filaments that form cross-linked networks in the cytoplasm of cells. Actin exists in both monomeric (G-actin) and polymeric (F-actin) forms, both forms playing key functions, such as cell motility and contraction. In addition to their role in the cytoplasmic cytoskeleton, G- and F-actin also localize in the nucleus, and regulate gene transcription and motility and repair of damaged DNA.	Doublesex- and mab-3-related transcription factor 1; Transcription factor that acts both as a transcription.	0.510
LOC101168921	pxdn	ENSORLP00000011676	ENSORLP00000022338	Actin, cytoplasmic 1, N-terminally processed; Actin is a highly conserved protein that polymerizes to produce filaments that form cross-linked networks in the cytoplasm of cells. Actin exists in both monomeric (G-actin) and polymeric (F-actin) forms, both forms playing key functions, such as cell motility and contraction. In addition to their role in the cytoplasmic cytoskeleton, G- and F-actin also localize in the nucleus, and regulate gene transcription and motility and repair of damaged DNA.	Peroxidasin.	0.572
LOC101168921	sox9	ENSORLP00000011676	ENSORLP00000009985	Actin, cytoplasmic 1, N-terminally processed; Actin is a highly conserved protein that polymerizes to produce filaments that form cross-linked networks in the cytoplasm of cells. Actin exists in both monomeric (G-actin) and polymeric (F-actin) forms, both forms playing key functions, such as cell motility and contraction. In addition to their role in the cytoplasmic cytoskeleton, G- and F-actin also localize in the nucleus, and regulate gene transcription and motility and repair of damaged DNA.	HMG box domain-containing protein.	0.416
LOC101174359	scp3	ENSORLP00000041413	ENSORLP00000028403	Cor1 domain-containing protein.	Cor1 domain-containing protein.	0.901
actb	cyp1a	ENSORLP00000031145	ENSORLP00000018073	Actin, cytoplasmic 1.	Cytochrome P450 1A1; Cytochromes P450 are a group of heme-thiolate monooxygenases. They oxidize a variety of structurally unrelated compounds, including steroids, fatty acids, and xenobiotics.	0.451
actb	dmy	ENSORLP00000031145	ENSORLP00000025381	Actin, cytoplasmic 1.	Doublesex- and mab-3-related transcription factor 1; Transcription factor that acts both as a transcription.	0.511
actb	pxdn	ENSORLP00000031145	ENSORLP00000022338	Actin, cytoplasmic 1.	Peroxidasin.	0.572
actb	sox9	ENSORLP00000031145	ENSORLP00000009985	Actin, cytoplasmic 1.	HMG box domain-containing protein.	0.416
ar-alpha	LOC100049233	ENSORLP00000010323	ENSORLP00000011941	Uncharacterized protein.	Androgen receptor beta subtype.	0.908
ar-alpha	dmy	ENSORLP00000010323	ENSORLP00000025381	Uncharacterized protein.	Doublesex- and mab-3-related transcription factor 1; Transcription factor that acts both as a transcription.	0.569
ar-alpha	sox9	ENSORLP00000010323	ENSORLP00000009985	Uncharacterized protein.	HMG box domain-containing protein.	0.410
cyp1a	LOC101168921	ENSORLP00000018073	ENSORLP00000011676	Cytochrome P450 1A1; Cytochromes P450 are a group of heme-thiolate monooxygenases. They oxidize a variety of structurally unrelated compounds, including steroids, fatty acids, and xenobiotics.	Actin, cytoplasmic 1, N-terminally processed; Actin is a highly conserved protein that polymerizes to produce filaments that form cross-linked networks in the cytoplasm of cells. Actin exists in both monomeric (G-actin) and polymeric (F-actin) forms, both forms playing key functions, such as cell motility and contraction. In addition to their role in the cytoplasmic cytoskeleton, G- and F-actin also localize in the nucleus, and regulate gene transcription and motility and repair of damaged DNA.	0.451
cyp1a	actb	ENSORLP00000018073	ENSORLP00000031145	Cytochrome P450 1A1; Cytochromes P450 are a group of heme-thiolate monooxygenases. They oxidize a variety of structurally unrelated compounds, including steroids, fatty acids, and xenobiotics.	Actin, cytoplasmic 1.	0.451
dazl	dmy	ENSORLP00000042767	ENSORLP00000025381	RRM domain-containing protein.	Doublesex- and mab-3-related transcription factor 1; Transcription factor that acts both as a transcription.	0.571
dazl	scp3	ENSORLP00000042767	ENSORLP00000028403	RRM domain-containing protein.	Cor1 domain-containing protein.	0.634
dmy	LOC100049233	ENSORLP00000025381	ENSORLP00000011941	Doublesex- and mab-3-related transcription factor 1; Transcription factor that acts both as a transcription.	Androgen receptor beta subtype.	0.568