Gene detail

Detailed information of OS493_029556-T1 in Lophelia pertusa

Genomic Location: scaffold_181:246807...256346
NR annotation: KAJ7389672.1, ATP-binding cassette sub- E member 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
P61221	ATP-binding cassette sub-family E member 1 OS=Homo sapiens OX=9606 GN=ABCE1 PE=1 SV=1
P61222	ATP-binding cassette sub-family E member 1 OS=Mus musculus OX=10090 GN=Abce1 PE=1 SV=1
Q9VSS1	Protein Pixie OS=Drosophila melanogaster OX=7227 GN=pix PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006330 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00037 all species →	Fer4	4Fe-4S binding domain	Domain	Interproscan
PF00005 all species →	ABC_tran	ABC transporter	Domain	Interproscan
PF04068 all species →	RLI	Possible Fer4-like domain in RNase L inhibitor, RLI	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR017896 all species →	Domain	4Fe-4S ferredoxin-type, iron-sulphur binding domain	Interproscan
IPR003439 all species →	Domain	ABC transporter-like, ATP-binding domain	Interproscan
IPR017900 all species →	Conserved_site	4Fe-4S ferredoxin, iron-sulphur binding, conserved site	Interproscan
IPR027417 all species →	Homologous_superfamily	P-loop containing nucleoside triphosphate hydrolase	Interproscan
IPR003593 all species →	Domain	AAA+ ATPase domain	Interproscan
IPR007209 all species →	Domain	RNase L inhibitor RLI-like, possible metal-binding domain	Interproscan
IPR034348 all species →	Domain	RLI, domain 1	Interproscan
IPR013283 all species →	Family	RLI1	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR19248 all species →	ATP-BINDING TRANSPORT PROTEIN-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005524 all species →	Molecular Function	ATP binding	Interproscan
GO:0016887 all species →	Molecular Function	ATP hydrolysis activity	Interproscan
GO:0000054 all species →	Biological Process	ribosomal subunit export from nucleus	Interproscan
GO:0005506 all species →	Molecular Function	iron ion binding	Interproscan
GO:0006413 all species →	Biological Process	translational initiation	Interproscan
GO:0006415 all species →	Biological Process	translational termination	Interproscan
GO:0043024 all species →	Molecular Function	ribosomal small subunit 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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K06174	ABCE1, Rli1; ATP-binding cassette, sub-family E, member 1	-	Ribosome biogenesis	ko03009	deepkoala

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.

Expression pattern (RNA-seq)

Transcript abundance of OS493_029556-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

59.9Max TPM

30.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	23.02	34.50
polyp at pH7 6	18	18	33.78	45.72
coral polyp · control treatment	16	16	36.38	58.57
coral polyp · oil and dispersant treatment	16	16	37.36	59.94
coral polyp · oil treatment	16	16	31.84	50.06
coral polyp · dispersant treatment	16	16	22.44	45.93
Polyp	10	10	31.81	54.26

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	-	34.50
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	33.71
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.67
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.72
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.59
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.66
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.42
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.40
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.19
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.55
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.49
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.10
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.52
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.35
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.81
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.12
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.78
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.78
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	45.72
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	45.07
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	44.98
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	44.03
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	42.51
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	42.27
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	38.81
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	37.20
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	36.10
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	35.23
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	34.43
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.78
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.53
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.27
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.57
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.38
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.96
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.12
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	58.57
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	47.64
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	43.55
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	41.91
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	41.77
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	40.70
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	40.69
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	35.71
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.47
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.07
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.70
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.04
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.64
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.48
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.11
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.01
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	59.94
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	53.12
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	44.11
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	42.91
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	42.83
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	40.91
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	37.53
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	36.12
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	35.43
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	34.28
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	32.71
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	31.18
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	30.44
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	30.24
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.99
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.02
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	50.06
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	42.33
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	39.71
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	39.45
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	36.42
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	35.29
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	33.04
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.83
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.40
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.59
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.07
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.13
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.20
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.61
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.89
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.45
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	45.93
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	37.44
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	32.31
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.79
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.64
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.92
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.74
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.24
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.07
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.69
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.59
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.11
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.01
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.48
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.84
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.19
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	54.26
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	43.53
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	42.24
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	39.86
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	35.22
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	34.46
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	25.62
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	20.80
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	12.29
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	9.81

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.