RFX3 protein (Equus caballus) - 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

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second shell of interactors

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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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[Homology]

Score

RFX3

Regulatory factor X3. (778 aa)

Predicted Functional Partners:

FOXJ1

0.755

LOC100072297

0.679

LOC100072307

0.679

LOC100147438

0.679

LOC100061584

0.679

LOC106780905

0.679

TMEM117

0.675

NAALADL2

0.672

BCO2

0.671

ATR

0.668

Your Current Organism:

Equus caballus

NCBI taxonomy Id: 9796
Other names: E. caballus, Equus przewalskii f. caballus, Equus przewalskii forma caballus, domestic horse, equine, horse

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Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
ATR	RFX3	ENSECAP00000046686	ENSECAP00000038841	ATR serine/threonine kinase; Belongs to the PI3/PI4-kinase family.	Regulatory factor X3.	0.668
BCO2	NAALADL2	ENSECAP00000018160	ENSECAP00000039356	Beta-carotene oxygenase 2.	N-acetylated alpha-linked acidic dipeptidase like 2.	0.729
BCO2	RFX3	ENSECAP00000018160	ENSECAP00000038841	Beta-carotene oxygenase 2.	Regulatory factor X3.	0.671
BCO2	TMEM117	ENSECAP00000018160	ENSECAP00000054503	Beta-carotene oxygenase 2.	Transmembrane protein 117.	0.694
FOXJ1	RFX3	ENSECAP00000012007	ENSECAP00000038841	Forkhead box J1.	Regulatory factor X3.	0.755
LOC100061584	RFX3	ENSECAP00000041435	ENSECAP00000038841	Uncharacterized protein.	Regulatory factor X3.	0.679
LOC100072297	RFX3	ENSECAP00000003931	ENSECAP00000038841	Uncharacterized protein.	Regulatory factor X3.	0.679
LOC100072307	RFX3	ENSECAP00000027510	ENSECAP00000038841	Uncharacterized protein.	Regulatory factor X3.	0.679
LOC100147438	RFX3	ENSECAP00000038923	ENSECAP00000038841	Uncharacterized protein.	Regulatory factor X3.	0.679
LOC106780905	RFX3	ENSECAP00000047826	ENSECAP00000038841	Uncharacterized protein.	Regulatory factor X3.	0.679
NAALADL2	BCO2	ENSECAP00000039356	ENSECAP00000018160	N-acetylated alpha-linked acidic dipeptidase like 2.	Beta-carotene oxygenase 2.	0.729
NAALADL2	RFX3	ENSECAP00000039356	ENSECAP00000038841	N-acetylated alpha-linked acidic dipeptidase like 2.	Regulatory factor X3.	0.672
NAALADL2	TMEM117	ENSECAP00000039356	ENSECAP00000054503	N-acetylated alpha-linked acidic dipeptidase like 2.	Transmembrane protein 117.	0.891
RFX3	ATR	ENSECAP00000038841	ENSECAP00000046686	Regulatory factor X3.	ATR serine/threonine kinase; Belongs to the PI3/PI4-kinase family.	0.668
RFX3	BCO2	ENSECAP00000038841	ENSECAP00000018160	Regulatory factor X3.	Beta-carotene oxygenase 2.	0.671
RFX3	FOXJ1	ENSECAP00000038841	ENSECAP00000012007	Regulatory factor X3.	Forkhead box J1.	0.755
RFX3	LOC100061584	ENSECAP00000038841	ENSECAP00000041435	Regulatory factor X3.	Uncharacterized protein.	0.679
RFX3	LOC100072297	ENSECAP00000038841	ENSECAP00000003931	Regulatory factor X3.	Uncharacterized protein.	0.679
RFX3	LOC100072307	ENSECAP00000038841	ENSECAP00000027510	Regulatory factor X3.	Uncharacterized protein.	0.679
RFX3	LOC100147438	ENSECAP00000038841	ENSECAP00000038923	Regulatory factor X3.	Uncharacterized protein.	0.679

page 1 of 2

Network Stats

number of nodes:

11

number of edges:

46

average node degree:

8.36

avg. local clustering coefficient:

0.948

expected number of edges:

47

PPI enrichment p-value:

0.53

your network does not have significantly more
interactions than expected (what does that mean?)

Functional enrichments in your networkNote: some enrichments may be expected here (why?)
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Biological Process (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0000398

mRNA splicing, via spliceosome

7 of 229

1.81

3.04

2.77e-08

GO:0010467

Gene expression

9 of 1738

1.04

1.14

4.44e-06

GO:0022618

Ribonucleoprotein complex assembly

3 of 155

1.61

0.8

0.0239

GO:0000387

Spliceosomal snRNP assembly

2 of 30

2.15

0.75

0.0415

GO:0034641

Cellular nitrogen compound metabolic process

9 of 3050

0.79

0.67

0.00044

(more ...)

Molecular Function (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:1990935

Splicing factor binding

2 of 4

3.02

1.34

0.0038

GO:0003723

RNA binding

8 of 1208

1.14

1.24

2.24e-05

GO:0003676

Nucleic acid binding

9 of 3699

0.71

0.53

0.0038

Cellular Component (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0005686

U2 snRNP

5 of 20

2.72

5.12

1.89e-10

GO:0071011

Precatalytic spliceosome

6 of 53

2.38

4.86

1.24e-10

GO:0005684

U2-type spliceosomal complex

6 of 92

2.14

4.22

5.76e-10

GO:0071005

U2-type precatalytic spliceosome

5 of 48

2.34

4.12

5.07e-09

GO:0005681

Spliceosomal complex

7 of 176

1.92

3.93

1.89e-10

(more ...)

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:18986

U2 snRNP, and Nuclear cap binding complex

6 of 23

2.74

5.91

5.02e-12

CL:18988

U2 snRNP

4 of 12

2.84

4.05

3.05e-08

CL:19002

Splicing factor binding, and PSP, proline-rich

3 of 5

3.1

3.14

1.97e-06

CL:19016

U4 snRNP

2 of 5

2.92

1.53

0.0017

KEGG Pathways

pathway

description

count in network

strength

signal

false discovery rate

map03040

Spliceosome

7 of 266

1.74

3.21

1.84e-09

Reactome Pathways

pathway

description

count in network

strength

signal

false discovery rate

MAP-72165

mRNA Splicing - Minor Pathway

6 of 59

2.33

4.64

2.98e-10

MAP-72172

mRNA Splicing

7 of 296

1.7

2.88

1.45e-08

MAP-72203

Processing of Capped Intron-Containing Pre-mRNA

7 of 391

1.57

2.48

5.54e-08

MAP-8953854

Metabolism of RNA

9 of 946

1.3

1.91

1.45e-08

Subcellular Localization (COMPARTMENTS)

compartment

description

count in network

strength

signal

false discovery rate

GOCC:1990904

Ribonucleoprotein complex

9 of 447

1.63

3.22

3.44e-11

GOCC:0097525

Spliceosomal snRNP complex

4 of 40

2.32

2.85

2.87e-06

GOCC:0005681

Spliceosomal complex

4 of 107

1.89

2.04

4.99e-05

GOCC:0005687

U4 snRNP

2 of 6

2.84

1.63

0.0011

GOCC:0005689

U12-type spliceosomal complex

2 of 8

2.72

1.53

0.0016

(more ...)

Annotated Keywords (UniProt)

keyword

description

count in network

strength

signal

false discovery rate

KW-0687

Ribonucleoprotein

4 of 93

1.96

2.16

3.14e-05

KW-0694

RNA-binding

4 of 347

1.38

1.06

0.0027

KW-0689

Ribosomal protein

2 of 63

1.82

0.7

0.0469

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