Gene detail

Detailed information of OS493_008828-T1 in Lophelia pertusa

Genomic Location: scaffold_21:424763...435909
NR annotation: KAJ7380376.1, hypothetical protein OS493_008828 [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)

No Swiss-Prot hit above the reporting threshold for this gene.

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001588 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01061 all species →	ABC2_membrane	ABC-2 type transporter	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR013525 all species →	Domain	ABC-2 type transporter, transmembrane domain	Interproscan
IPR027417 all species →	Homologous_superfamily	P-loop containing nucleoside triphosphate hydrolase	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR19241 all species →	ATP-BINDING CASSETTE TRANSPORTER	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0016020 all species →	Cellular Component	membrane	Interproscan
GO:0140359 all species →	Molecular Function	ABC-type transporter activity	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_008828-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_008828-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

104TPM > 0

7Conditions

68.9Max TPM

11.5Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	17	1.97	4.14
polyp at pH7 6	18	14	2.26	6.23
coral polyp · control treatment	16	16	11.86	41.27
coral polyp · oil and dispersant treatment	16	16	15.33	30.88
coral polyp · oil treatment	16	16	14.21	55.57
coral polyp · dispersant treatment	16	16	32.56	68.85
Polyp	10	9	1.01	2.08

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.14
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.62
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.51
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.04
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.98
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.84
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.59
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.50
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.02
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.88
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.56
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.12
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.11
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.76
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.68
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.59
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.58
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.23
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.01
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.16
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.30
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.43
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.28
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.28
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.19
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.01
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.99
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.73
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.66
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.28
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.15
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359501	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
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	41.27
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	37.01
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.86
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.15
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.60
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.28
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.57
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.07
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.49
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.79
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.74
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.82
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.58
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.29
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.14
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.07
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	30.88
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	28.93
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.88
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.54
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.96
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.99
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.27
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.33
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.22
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.94
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.57
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.22
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.78
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.84
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.04
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.89
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	55.57
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	36.92
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.14
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.24
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.85
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.88
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.73
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.73
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.49
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.31
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.80
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.82
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.17
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.42
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.98
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.24
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	68.85
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	67.28
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	65.61
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	52.04
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	45.74
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	39.98
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	27.01
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	26.18
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.33
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.57
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.05
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.45
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.70
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.86
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.83
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.40
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	2.08
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	1.63
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	1.12
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	1.06
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	1.03
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	1.02
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	0.90
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	0.76
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	0.50
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	0.00

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.