Gene detail

Detailed information of OS493_031559-T1 in Lophelia pertusa

Genomic Location: scaffold_220:372520...414436
NR annotation: KAJ7370553.1, formin y 2 domain containing [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
Q76LL6	FH1/FH2 domain-containing protein 3 OS=Mus musculus OX=10090 GN=Fhod3 PE=1 SV=1
Q2V2M9	FH1/FH2 domain-containing protein 3 OS=Homo sapiens OX=9606 GN=FHOD3 PE=1 SV=2
Q9Y613	FH1/FH2 domain-containing protein 1 OS=Homo sapiens OX=9606 GN=FHOD1 PE=1 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003657 (this species only)

Pfam domain

No Pfam domain signature was detected for OS493_031559-T1. This gene does have a gene model — the search simply returned no hit.

InterPro

InterPro term	Type	Description	Source
IPR011989 all species →	Homologous_superfamily	Armadillo-like helical	Interproscan
IPR016024 all species →	Homologous_superfamily	Armadillo-type fold	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR45920 all species →	FORMIN HOMOLOGY 2 DOMAIN CONTAINING, ISOFORM I	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0005856 all species →	Cellular Component	cytoskeleton	Interproscan
GO:0030866 all species →	Biological Process	cortical actin cytoskeleton organization	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

No KEGG orthology assignment for OS493_031559-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_031559-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

26.7Max TPM

6.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	5.40	7.93
polyp at pH7 6	18	18	6.45	8.29
coral polyp · control treatment	16	16	8.51	26.68
coral polyp · oil and dispersant treatment	16	16	6.08	17.96
coral polyp · oil treatment	16	16	7.51	12.80
coral polyp · dispersant treatment	16	16	7.20	15.65
Polyp	10	10	4.10	6.75

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.93
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.65
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.16
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.16
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.47
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.43
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.85
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.71
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.62
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.57
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.36
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.14
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.62
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.28
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.28
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.93
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.03
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.95
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.29
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.16
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.98
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.86
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.51
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.89
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.87
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.62
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.42
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.19
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.05
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.98
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.86
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.40
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.38
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.09
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.04
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.47
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.68
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.10
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.81
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.02
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.73
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.48
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.73
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.74
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.00
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.54
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.88
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.79
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.24
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.04
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.94
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.38
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.96
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.67
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.63
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.71
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.11
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.49
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.41
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.38
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.31
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.76
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.72
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.20
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.93
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.72
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.78
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.43
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.80
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.41
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.47
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.29
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.19
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.66
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.61
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.17
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.45
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.44
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.70
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.37
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.52
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.30
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.92
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.91
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.65
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.79
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.19
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.84
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.27
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.21
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.81
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.35
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.88
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.51
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.21
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.49
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.83
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.64
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.82
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.72
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	6.75
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	5.45
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	5.23
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	5.06
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	4.15
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	4.03
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	3.72
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	3.14
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	1.83
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	1.65

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.