Gene detail

Detailed information of OS493_027576-T1 in Lophelia pertusa

Genomic Location: scaffold_151:488155...492454
NR annotation: KAJ7390051.1, Multidrug resistance protein 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
P23174	Phosphatidylcholine translocator ABCB4 OS=Cricetulus griseus OX=10029 GN=ABCB4 PE=2 SV=1
P21448	ATP-dependent translocase ABCB1 OS=Cricetulus griseus OX=10029 GN=ABCB1 PE=1 SV=2
P21440	Phosphatidylcholine translocator ABCB4 OS=Mus musculus OX=10090 GN=Abcb4 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000779 (this species only)

Pfam domain

No Pfam domain signature was detected for OS493_027576-T1. This gene does have a gene model — the search simply returned no hit.

InterPro

InterPro term	Type	Description	Source
IPR027417 all species →	Homologous_superfamily	P-loop containing nucleoside triphosphate hydrolase	Interproscan
IPR036640 all species →	Homologous_superfamily	ABC transporter type 1, transmembrane domain superfamily	Interproscan
IPR039421 all species →	Family	Type 1 protein exporter	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR24222 all species →	ABC TRANSPORTER B FAMILY	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005524 all species →	Molecular Function	ATP binding	Interproscan
GO:0016020 all species →	Cellular Component	membrane	Interproscan
GO:0005887 all species →	Cellular Component	plasma membrane	Interproscan
GO:0042626 all species →	Molecular Function	ATPase-coupled transmembrane 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_027576-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_027576-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

93TPM > 0

7Conditions

15.2Max TPM

2.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	15	3.75	15.18
polyp at pH7 6	18	15	2.84	6.96
coral polyp · control treatment	16	15	2.23	8.03
coral polyp · oil and dispersant treatment	16	11	0.93	4.10
coral polyp · oil treatment	16	14	1.75	7.13
coral polyp · dispersant treatment	16	15	1.46	4.33
Polyp	10	8	2.73	7.90

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.18
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.82
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.38
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.61
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.49
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.49
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.41
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.97
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.17
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.69
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.53
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.48
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.38
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.33
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.52
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.96
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.91
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.31
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.43
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.27
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.08
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.99
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.91
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.38
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.86
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.39
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.27
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.68
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.39
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.36
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.03
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.52
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.58
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.79
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.76
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.42
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.19
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.72
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.52
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.37
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.32
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.22
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.55
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.41
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.31
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.10
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.09
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.66
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.56
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.48
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.07
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.00
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.83
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.69
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.29
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.11
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.13
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.10
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.17
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.49
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.29
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.70
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.70
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.15
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.00
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.97
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.57
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.39
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.29
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.07
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.33
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.32
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.93
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.30
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.76
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.54
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.42
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.22
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.91
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.72
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.53
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.50
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.39
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.34
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.19
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	7.90
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	6.67
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	5.26
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	2.87
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	2.01
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	1.04
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	0.86
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	0.74
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	0.00
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.