Gene detail

Detailed information of OS493_024762-T1 in Lophelia pertusa

Genomic Location: scaffold_117:593620...596105
NR annotation: KAJ7378099.1, Actin- protein 2/3 complex subunit 5 [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
Q9CPW4	Actin-related protein 2/3 complex subunit 5 OS=Mus musculus OX=10090 GN=Arpc5 PE=1 SV=3
O15511	Actin-related protein 2/3 complex subunit 5 OS=Homo sapiens OX=9606 GN=ARPC5 PE=1 SV=3
Q5R516	Actin-related protein 2/3 complex subunit 5 OS=Pongo abelii OX=9601 GN=ARPC5 PE=2 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0008727 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF04699 all species →	P16-Arc	ARP2/3 complex 16 kDa subunit (p16-Arc)	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR006789 all species →	Family	Actin-related protein 2/3 complex subunit 5	Interproscan
IPR036743 all species →	Homologous_superfamily	Actin-related protein 2/3 complex subunit 5 superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12644 all species →	ARP2/3 COMPLEX 16 KD SUBUNIT P16-ARC	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0005885 all species →	Cellular Component	Arp2/3 protein complex	Interproscan
GO:0015629 all species →	Cellular Component	actin cytoskeleton	Interproscan
GO:0016477 all species →	Biological Process	cell migration	Interproscan
GO:0034314 all species →	Biological Process	Arp2/3 complex-mediated actin nucleation	Interproscan
GO:0051015 all species →	Molecular Function	actin filament binding	Interproscan
GO:0030833 all species →	Biological Process	regulation of actin filament polymerization	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
K05754	ARPC5; actin related protein 2/3 complex, subunit 5	-	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_024762-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

170.9Max TPM

89.9Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	71.85	115.66
polyp at pH7 6	18	18	71.77	96.15
coral polyp · control treatment	16	16	118.94	170.87
coral polyp · oil and dispersant treatment	16	16	103.00	147.89
coral polyp · oil treatment	16	16	96.34	168.48
coral polyp · dispersant treatment	16	16	88.60	142.86
Polyp	10	10	79.32	132.96

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	115.66
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	104.72
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	99.03
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	97.57
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	95.59
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	85.12
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	75.34
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	73.06
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	58.58
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	58.07
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	57.33
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	55.96
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	54.19
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	54.17
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	53.59
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	53.54
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	52.46
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	49.29
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	96.15
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	93.57
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	91.24
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	89.97
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	82.87
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	82.81
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	82.65
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	78.43
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	76.83
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	73.14
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	66.49
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	65.63
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	63.88
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	62.51
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	58.58
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	51.51
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	38.95
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	36.72
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	170.87
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	169.11
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	163.11
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	163.04
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	162.15
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	137.37
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	132.70
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	126.62
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	113.95
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	110.65
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	107.89
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	92.78
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	91.23
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	79.18
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	50.82
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.63
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	147.89
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	144.08
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	140.96
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	132.14
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	131.94
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	125.60
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	124.12
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	118.70
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	108.47
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	98.83
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	92.40
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	78.77
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	63.66
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	61.94
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	51.24
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.19
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	168.48
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	151.63
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	137.82
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	132.41
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	127.08
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	126.11
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	111.88
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	101.77
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	79.74
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	77.37
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	72.30
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	72.23
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	58.06
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	52.96
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	36.64
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	35.04
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	142.86
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	135.63
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	117.33
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	111.28
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	109.95
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	105.51
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	103.84
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	101.93
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	92.53
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	78.52
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	77.44
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	70.55
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	70.26
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	55.12
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	34.58
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.29
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	132.96
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	110.69
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	100.97
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	83.64
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	83.00
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	62.92
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	62.14
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	56.44
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	54.87
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	45.58

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.