Gene detail

Detailed information of OS493_036526-T1 in Lophelia pertusa

Genomic Location: scaffold_368:154013...159983
NR annotation: KAJ7382195.1, Twinfilin-1 [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
Q91YR1	Twinfilin-1 OS=Mus musculus OX=10090 GN=Twf1 PE=1 SV=2
Q5RJR2	Twinfilin-1 OS=Rattus norvegicus OX=10116 GN=Twf1 PE=1 SV=1
Q5R7N2	Twinfilin-1 OS=Pongo abelii OX=9601 GN=TWF1 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0005134 (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
IPR002108 all species →	Domain	Actin-depolymerising factor homology domain	Interproscan
IPR028458 all species →	Family	Twinfilin	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR13759 all species →	TWINFILIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003779 all species →	Molecular Function	actin binding	Interproscan
GO:0003785 all species →	Molecular Function	actin monomer binding	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0005884 all species →	Cellular Component	actin filament	Interproscan
GO:0010591 all species →	Biological Process	regulation of lamellipodium assembly	Interproscan
GO:0010976 all species →	Biological Process	positive regulation of neuron projection development	Interproscan
GO:0030016 all species →	Cellular Component	myofibril	Interproscan
GO:0030042 all species →	Biological Process	actin filament depolymerization	Interproscan
GO:0030837 all species →	Biological Process	negative regulation of actin filament polymerization	Interproscan
GO:0042989 all species →	Biological Process	sequestering of actin monomers	Interproscan
GO:0051015 all species →	Molecular Function	actin filament binding	Interproscan
GO:0051016 all species →	Biological Process	barbed-end actin filament capping	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_036526-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_036526-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

111.6Max TPM

60.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	49.47	69.37
polyp at pH7 6	18	18	46.59	60.33
coral polyp · control treatment	16	16	73.23	106.90
coral polyp · oil and dispersant treatment	16	16	77.72	111.51
coral polyp · oil treatment	16	16	68.56	111.55
coral polyp · dispersant treatment	16	16	50.84	71.87
Polyp	10	10	58.24	75.57

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	-	69.37
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	61.38
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	61.31
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	60.96
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	53.88
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	51.50
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	50.76
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	50.48
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	50.38
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	50.26
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	47.41
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	46.69
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	43.09
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	42.56
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	40.54
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	37.23
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	36.50
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	36.05
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	60.33
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	54.09
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	53.73
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	52.39
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	51.84
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	50.82
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	49.51
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	49.50
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	47.35
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	45.76
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	45.47
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	41.97
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	41.67
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	41.31
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	40.68
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	40.14
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	37.41
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	34.58
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	106.90
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	106.55
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	100.39
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	83.18
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	78.81
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	78.20
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	72.21
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	71.11
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	70.22
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	68.71
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	67.67
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	65.83
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	62.74
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	58.60
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	50.38
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.26
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	111.51
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	91.89
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	91.06
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	90.39
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	81.67
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	79.32
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	78.93
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	78.46
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	77.43
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	77.05
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	73.85
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	71.83
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	68.08
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	62.69
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	55.58
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	53.85
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	111.55
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	90.33
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	80.71
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	78.64
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	78.53
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	75.23
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	69.75
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	68.30
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	65.84
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	65.13
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	62.38
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	58.63
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	55.21
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	47.72
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	47.58
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	41.48
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	71.87
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	68.07
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	63.98
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	60.44
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	57.00
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	55.29
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	53.81
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	52.71
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	49.82
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	47.93
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	46.96
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	46.95
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	45.13
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	40.89
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	40.77
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.87
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	75.57
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	75.13
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	70.56
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	65.00
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	61.80
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	59.39
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	53.74
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	48.22
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	41.79
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	31.24

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.