Gene detail

Detailed information of OS493_013085-T1 in Lophelia pertusa

Genomic Location: scaffold_35:223657...231818
NR annotation: KAJ7361999.1, hypothetical protein OS493_013085 [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
Q0V8S0	Hepatocyte growth factor-regulated tyrosine kinase substrate OS=Bos taurus OX=9913 GN=HGS PE=2 SV=1
Q99LI8	Hepatocyte growth factor-regulated tyrosine kinase substrate OS=Mus musculus OX=10090 GN=Hgs PE=1 SV=2
Q9JJ50	Hepatocyte growth factor-regulated tyrosine kinase substrate OS=Rattus norvegicus OX=10116 GN=Hgs PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003063 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00790 all species →	VHS	VHS domain	Repeat	Interproscan
PF01363 all species →	FYVE	FYVE zinc finger	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR002014 all species →	Domain	VHS domain	Interproscan
IPR008942 all species →	Homologous_superfamily	ENTH/VHS	Interproscan
IPR017073 all species →	Family	Hepatocyte growth factor-regulated tyrosine kinase substrate/VPS27	Interproscan
IPR003903 all species →	Conserved_site	Ubiquitin interacting motif	Interproscan
IPR011011 all species →	Homologous_superfamily	Zinc finger, FYVE/PHD-type	Interproscan
IPR013083 all species →	Homologous_superfamily	Zinc finger, RING/FYVE/PHD-type	Interproscan
IPR017455 all species →	Domain	Zinc finger, FYVE-related	Interproscan
IPR000306 all species →	Domain	FYVE zinc finger	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR46275 all species →	HEPATOCYTE GROWTH FACTOR-REGULATED TYROSINE KINASE SUBSTRATE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0035091 all species →	Molecular Function	phosphatidylinositol binding	Interproscan
GO:0043130 all species →	Molecular Function	ubiquitin binding	Interproscan
GO:0005769 all species →	Cellular Component	early endosome	Interproscan
GO:0031623 all species →	Biological Process	receptor internalization	Interproscan
GO:0032456 all species →	Biological Process	endocytic recycling	Interproscan
GO:0046872 all species →	Molecular Function	metal ion 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_013085-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_013085-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

480.1Max TPM

50.9Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	6.84	10.60
polyp at pH7 6	18	18	7.12	11.68
coral polyp · control treatment	16	16	31.42	90.42
coral polyp · oil and dispersant treatment	16	16	97.74	219.67
coral polyp · oil treatment	16	16	27.24	52.52
coral polyp · dispersant treatment	16	16	173.09	480.09
Polyp	10	10	7.76	18.42

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	-	10.60
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.28
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.29
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.02
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.72
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.50
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.85
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.71
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.33
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.08
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.97
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.81
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.45
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.35
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.22
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.85
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.46
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.73
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.68
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.89
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.15
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.49
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.41
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.17
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.13
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.05
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.56
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.36
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.27
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.27
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.57
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.30
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.88
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.41
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.64
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.85
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	90.42
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	52.96
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	43.63
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	38.27
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.88
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.03
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.62
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.95
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.95
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.84
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.03
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.35
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.27
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.45
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.32
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.79
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	219.67
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	181.42
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	158.26
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	155.04
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	125.11
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	102.87
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	92.51
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	88.60
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	77.08
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	76.12
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	70.66
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	50.92
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	46.83
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	45.41
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	39.22
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	34.08
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	52.52
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	52.22
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	35.01
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	33.52
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.77
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.79
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.96
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.72
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.99
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.82
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.39
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.39
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.28
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.50
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.65
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.26
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	480.09
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	307.59
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	239.54
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	226.80
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	215.68
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	208.57
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	189.82
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	179.91
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	169.42
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	139.64
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	126.06
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	93.22
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	87.86
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	80.44
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.96
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.91
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	18.42
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	10.43
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	8.64
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	8.37
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	8.17
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	6.54
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	6.31
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	5.81
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	2.68
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	2.24

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.