Gene detail

Detailed information of OS493_037510-T1 in Lophelia pertusa

Genomic Location: scaffold_432:27986...30884
NR annotation: KAJ7318653.1, cofilin [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
Q4P6E9	Cofilin OS=Mycosarcoma maydis OX=5270 GN=COF1 PE=3 SV=1
Q4I963	Cofilin OS=Gibberella zeae (strain ATCC MYA-4620 / CBS 123657 / FGSC 9075 / NRRL 31084 / PH-1) OX=229533 GN=COF1 PE=3 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0016098 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00241 all species →	Cofilin_ADF	Cofilin/tropomyosin-type actin-binding protein	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR029006 all species →	Homologous_superfamily	ADF-H/Gelsolin-like domain superfamily	Interproscan
IPR017904 all species →	Family	ADF/Cofilin	Interproscan
IPR002108 all species →	Domain	Actin-depolymerising factor homology domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11913 all species →	COFILIN-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0015629 all species →	Cellular Component	actin cytoskeleton	Interproscan
GO:0030042 all species →	Biological Process	actin filament depolymerization	Interproscan
GO:0030043 all species →	Biological Process	actin filament fragmentation	Interproscan
GO:0030479 all species →	Cellular Component	actin cortical patch	Interproscan
GO:0051014 all species →	Biological Process	actin filament severing	Interproscan
GO:0051015 all species →	Molecular Function	actin filament binding	Interproscan
GO:0003779 all species →	Molecular Function	actin 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

No KEGG orthology assignment for OS493_037510-T1.

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

Expression pattern (RNA-seq)

Transcript abundance of OS493_037510-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

100TPM > 0

7Conditions

27.1Max TPM

3.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	17	5.19	11.68
polyp at pH7 6	18	15	3.40	6.88
coral polyp · control treatment	16	16	4.21	17.07
coral polyp · oil and dispersant treatment	16	13	1.21	5.53
coral polyp · oil treatment	16	15	2.58	15.63
coral polyp · dispersant treatment	16	14	3.65	11.94
Polyp	10	10	5.93	27.10

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.68
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.93
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.98
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.97
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.84
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.84
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.41
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.82
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.53
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.43
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.06
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.00
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.62
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.81
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.46
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.13
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.80
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.88
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.82
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.58
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.13
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.64
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.20
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.06
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.03
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.95
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.47
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.64
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.12
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.90
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.84
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.00
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.07
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.68
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.18
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.99
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.38
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.21
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.52
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.36
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.26
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.19
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.09
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.73
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.50
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.26
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.05
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.92
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.53
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.49
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.21
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.49
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.27
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.19
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.05
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.88
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.85
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.74
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.69
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.68
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.32
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.63
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.63
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.31
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.96
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.71
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.62
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.53
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.01
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.59
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.06
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.66
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.57
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.52
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.37
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.13
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.94
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.65
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.64
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.81
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.81
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.44
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.77
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.45
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.86
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.10
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.16
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.77
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.76
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.30
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	27.10
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	11.28
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	3.89
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	3.84
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	3.46
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	3.45
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	2.05
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	1.91
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	1.54
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	0.82

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.