Gene detail

Detailed information of OS493_040647-T1 in Lophelia pertusa

Genomic Location: scaffold_2694:2653...3159
NR annotation: KAJ7305688.1, Actin- protein 2/3 complex subunit 4 [Desmophyllum pertusum]
Species Lophelia pertusa · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q641G7	Actin-related protein 2/3 complex subunit 4 OS=Xenopus laevis OX=8355 GN=arpc4 PE=1 SV=1
Q148J6	Actin-related protein 2/3 complex subunit 4 OS=Bos taurus OX=9913 GN=ARPC4 PE=1 SV=3
P59998	Actin-related protein 2/3 complex subunit 4 OS=Homo sapiens OX=9606 GN=ARPC4 PE=1 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0009533 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF05856 all species →	ARPC4	ARP2/3 complex 20 kDa subunit (ARPC4)	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR034666 all species →	Homologous_superfamily	Arp2/3 complex subunit 2/4	Interproscan
IPR008384 all species →	Family	Actin-related protein 2/3 complex subunit 4	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR22629 all species →	ARP2/3 COMPLEX 20 KD SUBUNIT	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005885 all species →	Cellular Component	Arp2/3 protein complex	Interproscan
GO:0015629 all species →	Cellular Component	actin cytoskeleton	Interproscan
GO:0030041 all species →	Biological Process	actin filament polymerization	Interproscan
GO:0034314 all species →	Biological Process	Arp2/3 complex-mediated actin nucleation	Interproscan
GO:0051015 all species →	Molecular Function	actin filament binding	Interproscan

Search by domain instead of by gene. Any accession above (InterPro, Pfam, PANTHER, GO, KEGG) can be used as a query on the Functional Domain Search page, which searches all 148 annotated genomes at once.

KEGG pathway

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K05755	ARPC4; actin related protein 2/3 complex, subunit 4	-	Cytoskeleton proteins	ko04812	deepkoala

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.

Expression pattern (RNA-seq)

Transcript abundance of OS493_040647-T1 across 110 RNA-seq samples of Lophelia pertusa. Values are TPM (transcripts per million) from the StringTie quantification; one bar is one sample, grouped and coloured by condition, sorted by expression within each group.

110Samples

110TPM > 0

7Conditions

178.6Max TPM

88.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	93.61	153.72
polyp at pH7 6	18	18	88.60	107.64
coral polyp · control treatment	16	16	102.70	171.48
coral polyp · oil and dispersant treatment	16	16	85.40	152.38
coral polyp · oil treatment	16	16	92.40	142.90
coral polyp · dispersant treatment	16	16	60.38	99.61
Polyp	10	10	103.32	178.62

Per sample · hover a bar for the full sample record · show / hide the sample table

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	153.72
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	130.12
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	113.52
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	108.75
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	106.94
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	105.92
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	93.39
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	92.28
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	85.44
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	85.01
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	82.76
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	82.24
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	79.99
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	78.27
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	75.68
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	73.02
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	69.20
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	68.81
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	107.64
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	106.36
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	103.45
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	102.15
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	102.04
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	101.40
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	97.98
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	93.91
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	92.45
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	92.28
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	91.88
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	86.59
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	81.69
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	76.56
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	73.11
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	65.11
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	62.12
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	58.10
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	171.48
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	132.38
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	131.62
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	129.39
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	121.64
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	110.86
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	108.74
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	99.34
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	97.17
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	90.41
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	88.47
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	84.09
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	83.31
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	77.83
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	67.48
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	49.02
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	152.38
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	112.40
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	105.97
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	97.68
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	96.09
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	93.60
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	93.31
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	90.82
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	87.07
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	83.51
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	67.93
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	66.36
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	64.38
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	59.95
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	53.78
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	41.16
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	142.90
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	128.86
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	121.45
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	120.20
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	116.66
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	110.80
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	95.59
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	90.03
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	89.52
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	74.32
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	73.34
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	70.54
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	68.08
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	67.88
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	59.61
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	48.65
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	99.61
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	90.38
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	87.95
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	79.80
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	70.71
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	63.47
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	57.83
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	55.60
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	55.33
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	53.58
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	51.71
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	49.02
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	48.27
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	42.47
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	34.60
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.81
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	178.62
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	118.91
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	112.72
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	104.97
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	103.41
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	94.47
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	87.50
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	80.27
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	79.91
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	72.41

Source: CnidoSite RNA-seq expression matrices (LPERT_TPM, StringTie quantification over 110 runs), joined to SRA sample metadata. Samples whose tissue/treatment is not recorded in the source metadata are grouped by the descriptor carried in the expression matrix itself.