LOC109139741 protein (Larimichthys crocea) - STRING interaction network

Nodes:

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splice isoforms or post-translational modifications are collapsed, i.e. each node represents all the proteins produced by a single, protein-coding gene locus.

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query proteins and first shell of interactors

white nodes:
second shell of interactors

Node Content

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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:

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Score

LOC109139741

Polymeric immunoglobulin receptor. (344 aa)

Predicted Functional Partners:

ENSLCRP00005005990

0.441

LOC104930937

0.441

LOC104930867

0.441

tnr

0.441

tnn

0.441

Your Current Organism:

Larimichthys crocea

NCBI taxonomy Id: 215358
Other names: L. crocea, Pseudosciaena amblyceps, Pseudosciaena crocea, Sciaena crocea, croceine croaker, large yellow croaker

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Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
ENSLCRP00005005990	LOC104930867	ENSLCRP00005005990	ENSLCRP00005051402	annotation not available	Tenascin.	0.478
ENSLCRP00005005990	LOC104930937	ENSLCRP00005005990	ENSLCRP00005037648	annotation not available	Tenascin.	0.473
ENSLCRP00005005990	LOC109139741	ENSLCRP00005005990	ENSLCRP00005003777	annotation not available	Polymeric immunoglobulin receptor.	0.441
ENSLCRP00005005990	tnn	ENSLCRP00005005990	ENSLCRP00005052430	annotation not available	Tenascin N.	0.473
ENSLCRP00005005990	tnr	ENSLCRP00005005990	ENSLCRP00005051661	annotation not available	Tenascin-R isoform X3.	0.473
LOC104930867	ENSLCRP00005005990	ENSLCRP00005051402	ENSLCRP00005005990	Tenascin.	annotation not available	0.478
LOC104930867	LOC104930937	ENSLCRP00005051402	ENSLCRP00005037648	Tenascin.	Tenascin.	0.484
LOC104930867	LOC109139741	ENSLCRP00005051402	ENSLCRP00005003777	Tenascin.	Polymeric immunoglobulin receptor.	0.441
LOC104930867	tnn	ENSLCRP00005051402	ENSLCRP00005052430	Tenascin.	Tenascin N.	0.488
LOC104930867	tnr	ENSLCRP00005051402	ENSLCRP00005051661	Tenascin.	Tenascin-R isoform X3.	0.473
LOC104930937	ENSLCRP00005005990	ENSLCRP00005037648	ENSLCRP00005005990	Tenascin.	annotation not available	0.473
LOC104930937	LOC104930867	ENSLCRP00005037648	ENSLCRP00005051402	Tenascin.	Tenascin.	0.484
LOC104930937	LOC109139741	ENSLCRP00005037648	ENSLCRP00005003777	Tenascin.	Polymeric immunoglobulin receptor.	0.441
LOC104930937	tnn	ENSLCRP00005037648	ENSLCRP00005052430	Tenascin.	Tenascin N.	0.488
LOC104930937	tnr	ENSLCRP00005037648	ENSLCRP00005051661	Tenascin.	Tenascin-R isoform X3.	0.473
LOC109139741	ENSLCRP00005005990	ENSLCRP00005003777	ENSLCRP00005005990	Polymeric immunoglobulin receptor.	annotation not available	0.441
LOC109139741	LOC104930867	ENSLCRP00005003777	ENSLCRP00005051402	Polymeric immunoglobulin receptor.	Tenascin.	0.441
LOC109139741	LOC104930937	ENSLCRP00005003777	ENSLCRP00005037648	Polymeric immunoglobulin receptor.	Tenascin.	0.441
LOC109139741	tnn	ENSLCRP00005003777	ENSLCRP00005052430	Polymeric immunoglobulin receptor.	Tenascin N.	0.441
LOC109139741	tnr	ENSLCRP00005003777	ENSLCRP00005051661	Polymeric immunoglobulin receptor.	Tenascin-R isoform X3.	0.441

page 1 of 2

Network Stats

number of nodes:

11

number of edges:

25

average node degree:

4.55

avg. local clustering coefficient:

0.676

expected number of edges:

16

PPI enrichment p-value:

0.0223

your network has significantly more interactions
than expected (what does that mean?)

Functional enrichments in your networkNote: some enrichments may be expected here (why?)
disable highlight explain columns

Biological Process (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0006366

Transcription by RNA polymerase II

6 of 179

1.86

2.89

1.81e-07

GO:0006351

Transcription, DNA-templated

7 of 313

1.69

2.59

1.81e-07

GO:0006367

Transcription initiation from RNA polymerase II promoter

3 of 33

2.3

1.83

0.00034

GO:0045948

Positive regulation of translational initiation

2 of 19

2.36

1.0

0.0148

GO:0030150

Protein import into mitochondrial matrix

2 of 23

2.28

0.92

0.0199

Molecular Function (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0003899

DNA-directed 5-3 RNA polymerase activity

4 of 21

2.62

3.24

8.12e-07

GO:0031369

Translation initiation factor binding

2 of 17

2.41

1.0

0.0146

Cellular Component (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0005665

RNA polymerase II, core complex

5 of 14

2.89

5.66

2.56e-11

GO:0055029

Nuclear DNA-directed RNA polymerase complex

7 of 97

2.2

5.0

9.66e-12

GO:0016591

RNA polymerase II, holoenzyme

6 of 71

2.27

4.73

1.04e-10

GO:0005744

TIM23 mitochondrial import inner membrane translocase complex

2 of 9

2.69

1.65

0.00095

GO:0005654

Nucleoplasm

7 of 2180

0.85

0.7

0.0010

(more ...)

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:9495

RNA polymerase II, core complex

5 of 8

3.13

5.64

4.38e-11

CL:9468

RNA Polymerase II Pre-transcription Events, and RNA Polymerase III Transcription Initiation From Type 1 Promoter

7 of 181

1.93

3.78

6.36e-10

CL:9476

RNA Polymerase II Pre-transcription Events, and Transcription elongation factor complex

6 of 126

2.02

3.59

8.63e-09

CL:32588

Mitochondrial protein import, and Protein insertion into mitochondrial inner membrane

3 of 38

2.24

1.82

0.00034

CL:32638

TIM23 mitochondrial import inner membrane translocase complex

2 of 5

2.94

1.54

0.0016

KEGG Pathways

pathway

description

count in network

strength

signal

false discovery rate

map03020

RNA polymerase

6 of 54

2.38

5.25

1.69e-11

map04623

Cytosolic DNA-sensing pathway

2 of 68

1.81

0.71

0.0443

Reactome Pathways

pathway

description

count in network

strength

signal

false discovery rate

MAP-6803529

FGFR2 alternative splicing

6 of 27

2.69

5.95

3.21e-12

MAP-77075

RNA Pol II CTD phosphorylation and interaction with CE

6 of 32

2.61

5.83

4.00e-12

MAP-72086

mRNA Capping

6 of 33

2.6

5.81

4.00e-12

MAP-113418

Formation of the Early Elongation Complex

6 of 36

2.56

5.77

4.00e-12

MAP-76042

RNA Polymerase II Transcription Initiation And Promoter Clearance

6 of 52

2.4

5.21

2.34e-11

(more ...)

Subcellular Localization (COMPARTMENTS)

compartment

description

count in network

strength

signal

false discovery rate

GOCC:0000428

DNA-directed RNA polymerase complex

7 of 94

2.21

5.03

9.54e-12

GOCC:0055029

Nuclear DNA-directed RNA polymerase complex

6 of 81

2.21

4.39

4.47e-10

GOCC:0005665

RNA polymerase II, core complex

3 of 8

2.91

2.97

3.65e-06

GOCC:0016591

RNA polymerase II, holoenzyme

4 of 59

2.17

2.71

3.65e-06

GOCC:0005744

TIM23 mitochondrial import inner membrane translocase complex

2 of 9

2.69

1.55

0.0015

(more ...)

Annotated Keywords (UniProt)

keyword

description

count in network

strength

signal

false discovery rate

KW-0240

DNA-directed RNA polymerase

6 of 30

2.64

6.1

1.23e-12

KW-0804

Transcription

7 of 517

1.47

2.18

1.26e-07

Protein Domains (SMART)

domain

description

count in network

strength

signal

false discovery rate

SM00662

RNA polymerases D

2 of 2

3.34

1.69

0.00092

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