Gene detail

Detailed information of OS493_029852-T1 in Lophelia pertusa

Genomic Location: scaffold_185:557151...559644
NR annotation: KAJ7354846.1, EH domain-containing protein 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
Q9H4M9	EH domain-containing protein 1 OS=Homo sapiens OX=9606 GN=EHD1 PE=1 SV=2
Q5RBP4	EH domain-containing protein 1 OS=Pongo abelii OX=9601 GN=EHD1 PE=2 SV=1
Q5E9R3	EH domain-containing protein 1 OS=Bos taurus OX=9913 GN=EHD1 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007593 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF16880 all species →	EHD_N	N-terminal EH-domain containing protein	Family	Interproscan
PF12763 all species →	EF-hand_4	Cytoskeletal-regulatory complex EF hand	Family	Interproscan
PF00350 all species →	Dynamin_N	Dynamin family	Domain	Interproscan
PF18150 all species →	DUF5600	Domain of unknown function (DUF5600)	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR011992 all species →	Homologous_superfamily	EF-hand domain pair	Interproscan
IPR027417 all species →	Homologous_superfamily	P-loop containing nucleoside triphosphate hydrolase	Interproscan
IPR031692 all species →	Domain	EH domain-containing protein, N-terminal	Interproscan
IPR000261 all species →	Domain	EH domain	Interproscan
IPR030381 all species →	Domain	Dynamin-type guanine nucleotide-binding (G) domain	Interproscan
IPR002048 all species →	Domain	EF-hand domain	Interproscan
IPR018247 all species →	Binding_site	EF-Hand 1, calcium-binding site	Interproscan
IPR045063 all species →	Domain	Dynamin, N-terminal	Interproscan
IPR040990 all species →	Domain	Domain of unknown function DUF5600	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11216 all species →	EH DOMAIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0005525 all species →	Molecular Function	GTP binding	Interproscan
GO:0005509 all species →	Molecular Function	calcium ion binding	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0005886 all species →	Cellular Component	plasma membrane	Interproscan
GO:0006897 all species →	Biological Process	endocytosis	Interproscan
GO:0016197 all species →	Biological Process	endosomal transport	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_029852-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_029852-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

169.8Max TPM

34.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	17.64	25.11
polyp at pH7 6	18	18	18.77	30.10
coral polyp · control treatment	16	16	34.10	61.93
coral polyp · oil and dispersant treatment	16	16	54.99	86.73
coral polyp · oil treatment	16	16	24.67	55.53
coral polyp · dispersant treatment	16	16	78.11	169.83
Polyp	10	10	9.22	17.28

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	-	25.11
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.00
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.62
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.51
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.71
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.84
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.82
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.53
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.40
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.39
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.74
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.52
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.29
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.22
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.43
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.14
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.95
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.28
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.10
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.57
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.59
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.02
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.18
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.45
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.28
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.20
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.60
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.53
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.13
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.34
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.49
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.52
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.48
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.13
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.72
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.48
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	61.93
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	47.42
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	46.78
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	45.12
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	43.54
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	36.98
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	36.60
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	35.87
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.34
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.89
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.10
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.54
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.85
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.26
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.83
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.47
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	86.73
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	84.51
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	83.20
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	77.89
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	65.24
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	63.25
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	62.68
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	58.46
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	51.57
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	48.48
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	41.66
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	37.14
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	36.75
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	34.04
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	31.15
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.14
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	55.53
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	35.16
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	34.92
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.16
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.07
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.78
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.50
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.50
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.22
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.64
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.76
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.39
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.14
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.49
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.79
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.66
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	169.83
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	115.02
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	113.35
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	110.37
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	103.33
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	98.26
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	80.71
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	80.40
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	77.97
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	72.32
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	63.29
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	60.06
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	49.98
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	42.69
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.96
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.18
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	17.28
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	12.71
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	11.88
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	9.69
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	8.78
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	8.07
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	7.34
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	6.47
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	5.51
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	4.50

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.