LOC100182576 protein (Ciona intestinalis) - STRING interaction network

Nodes:

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second shell of interactors

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a 3D structure is known or predicted

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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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Gene Fusion

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Coexpression

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Score

LOC100182576

ER membrane protein complex subunit 3-like. (114 aa)

Predicted Functional Partners:

LOC100179818

0.954

F6UA18_CIOIN

0.949

LOC100180785

0.939

LOC100177708

0.937

LOC100181673

0.921

H2XJW9_CIOIN

0.920

LOC100180096

0.698

F6VKC0_CIOIN

0.561

F6XWG9_CIOIN

0.549

H2Y233_CIOIN

0.474

Your Current Organism:

Ciona intestinalis

NCBI taxonomy Id: 7719
Other names: Ascidia intestinalis, C. intestinalis, sea vase, vase tunicate, yellow sea squirt

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Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
F6UA18_CIOIN	H2XJW9_CIOIN	ENSCINP00000007148	ENSCINP00000029951	TPR_REGION domain-containing protein.	MPN domain-containing protein.	0.968
F6UA18_CIOIN	LOC100177708	ENSCINP00000007148	ENSCINP00000035544	TPR_REGION domain-containing protein.	EMC1_C domain-containing protein.	0.995
F6UA18_CIOIN	LOC100179818	ENSCINP00000007148	ENSCINP00000003880	TPR_REGION domain-containing protein.	ER membrane protein complex subunit 4; Belongs to the EMC4 family.	0.996
F6UA18_CIOIN	LOC100180096	ENSCINP00000007148	ENSCINP00000004863	TPR_REGION domain-containing protein.	Dynactin subunit 4 isoform X2.	0.855
F6UA18_CIOIN	LOC100180785	ENSCINP00000007148	ENSCINP00000000578	TPR_REGION domain-containing protein.	ER membrane protein complex subunit 7.	0.965
F6UA18_CIOIN	LOC100181673	ENSCINP00000007148	ENSCINP00000019944	TPR_REGION domain-containing protein.	ER membrane protein complex subunit 10 isoform X2.	0.969
F6UA18_CIOIN	LOC100182576	ENSCINP00000007148	ENSCINP00000030893	TPR_REGION domain-containing protein.	ER membrane protein complex subunit 3-like.	0.949
F6VKC0_CIOIN	LOC100182576	ENSCINP00000014834	ENSCINP00000030893	Calcium load-activated calcium channel; Calcium-selective channel required to prevent calcium stores from overfilling.	ER membrane protein complex subunit 3-like.	0.561
F6XWG9_CIOIN	LOC100179818	ENSCINP00000015354	ENSCINP00000003880	UBIQUITIN_CONJUGAT_2 domain-containing protein; Belongs to the ubiquitin-conjugating enzyme family.	ER membrane protein complex subunit 4; Belongs to the EMC4 family.	0.750
F6XWG9_CIOIN	LOC100182576	ENSCINP00000015354	ENSCINP00000030893	UBIQUITIN_CONJUGAT_2 domain-containing protein; Belongs to the ubiquitin-conjugating enzyme family.	ER membrane protein complex subunit 3-like.	0.549
H2XJW9_CIOIN	F6UA18_CIOIN	ENSCINP00000029951	ENSCINP00000007148	MPN domain-containing protein.	TPR_REGION domain-containing protein.	0.968
H2XJW9_CIOIN	LOC100177708	ENSCINP00000029951	ENSCINP00000035544	MPN domain-containing protein.	EMC1_C domain-containing protein.	0.955
H2XJW9_CIOIN	LOC100179818	ENSCINP00000029951	ENSCINP00000003880	MPN domain-containing protein.	ER membrane protein complex subunit 4; Belongs to the EMC4 family.	0.958
H2XJW9_CIOIN	LOC100180785	ENSCINP00000029951	ENSCINP00000000578	MPN domain-containing protein.	ER membrane protein complex subunit 7.	0.955
H2XJW9_CIOIN	LOC100181673	ENSCINP00000029951	ENSCINP00000019944	MPN domain-containing protein.	ER membrane protein complex subunit 10 isoform X2.	0.954
H2XJW9_CIOIN	LOC100182576	ENSCINP00000029951	ENSCINP00000030893	MPN domain-containing protein.	ER membrane protein complex subunit 3-like.	0.920
H2Y233_CIOIN	LOC100182576	ENSCINP00000035968	ENSCINP00000030893	Nuclear cap-binding protein subunit 2.	ER membrane protein complex subunit 3-like.	0.474
LOC100177708	F6UA18_CIOIN	ENSCINP00000035544	ENSCINP00000007148	EMC1_C domain-containing protein.	TPR_REGION domain-containing protein.	0.995
LOC100177708	H2XJW9_CIOIN	ENSCINP00000035544	ENSCINP00000029951	EMC1_C domain-containing protein.	MPN domain-containing protein.	0.955
LOC100177708	LOC100179818	ENSCINP00000035544	ENSCINP00000003880	EMC1_C domain-containing protein.	ER membrane protein complex subunit 4; Belongs to the EMC4 family.	0.995

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Network Stats

number of nodes:

11

number of edges:

50

average node degree:

9.09

avg. local clustering coefficient:

0.929

expected number of edges:

14

PPI enrichment p-value:

8.84e-14

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:0000184

Nuclear-transcribed mRNA catabolic process, nonsense-mediated decay

7 of 28

2.62

6.54

1.26e-13

GO:0051028

mRNA transport

6 of 79

2.1

3.82

4.93e-09

GO:0016071

mRNA metabolic process

10 of 478

1.54

3.04

6.86e-12

GO:0048024

Regulation of mRNA splicing, via spliceosome

4 of 78

1.93

2.14

3.25e-05

GO:0008380

RNA splicing

6 of 297

1.53

2.01

2.86e-06

(more ...)

Molecular Function (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0042162

Telomeric DNA binding

3 of 21

2.38

1.9

0.00027

GO:0003723

RNA binding

10 of 1039

1.21

1.7

9.40e-09

GO:0003676

Nucleic acid binding

11 of 2953

0.79

2.42e-06

Cellular Component (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0016607

Nuclear speck

6 of 222

1.65

2.26

1.88e-06

GO:0035145

Exon-exon junction complex

2 of 7

2.68

1.39

0.0029

GO:0071006

U2-type catalytic step 1 spliceosome

2 of 10

2.52

1.29

0.0044

GO:0140513

Nuclear protein-containing complex

7 of 970

1.08

1.05

0.00013

GO:1990904

Ribonucleoprotein complex

5 of 528

1.2

0.94

0.0025

(more ...)

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:17473

Nuclear-transcribed mRNA catabolic process, nonsense-mediated decay, and ASAP complex

7 of 11

3.03

8.43

1.46e-16

CL:17467

Nuclear-transcribed mRNA catabolic process, nonsense-mediated decay, and ASAP complex

8 of 26

2.71

8.3

3.62e-17

CL:17475

Catalytic step 1 spliceosome, and UPF3 domain

4 of 5

3.13

4.55

4.85e-09

KEGG Pathways

pathway

description

count in network

strength

signal

false discovery rate

map03015

mRNA surveillance pathway

10 of 123

2.13

7.06

6.01e-19

map03013

RNA transport

10 of 236

1.85

5.09

1.64e-16

map03040

Spliceosome

4 of 229

1.46

1.34

0.00050

Reactome Pathways

pathway

description

count in network

strength

signal

false discovery rate

MAP-159236

Transport of Mature mRNA derived from an Intron-Containing Transcript

7 of 69

2.23

5.31

2.12e-12

MAP-72202

Transport of Mature Transcript to Cytoplasm

7 of 74

2.2

5.21

2.69e-12

MAP-975957

Nonsense Mediated Decay (NMD) enhanced by the Exon Junction Complex (EJC)

8 of 115

2.06

5.02

8.67e-13

MAP-927802

Nonsense-Mediated Decay (NMD)

8 of 115

2.06

5.02

8.67e-13

MAP-72187

mRNA 3-end processing

6 of 58

2.24

4.59

1.78e-10

(more ...)

Subcellular Localization (COMPARTMENTS)

compartment

description

count in network

strength

signal

false discovery rate

GOCC:0035145

Exon-exon junction complex

5 of 8

3.02

5.56

5.12e-11

GOCC:0005681

Spliceosomal complex

3 of 96

1.72

0.88

0.0182

GOCC:1990904

Ribonucleoprotein complex

4 of 402

1.22

0.71

0.0206

GOCC:0005634

Nucleus

8 of 2891

0.66

0.43

0.0201

GOCC:0032991

Protein-containing complex

9 of 4103

0.56

0.38

0.0201

Protein Domains and Features (InterPro)

domain

description

count in network

strength

signal

false discovery rate

IPR035979

RNA-binding domain superfamily

4 of 210

1.5

0.7

0.0368

IPR012677

Nucleotide-binding alpha-beta plait domain superfamily

4 of 214

1.49

0.7

0.0368

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