Gene detail

Detailed information of OS493_012509-T1 in Lophelia pertusa

Genomic Location: scaffold_33:12794...13237
NR annotation: KAJ7379763.1, factor 1, partial [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)	OG0002957 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF21366 all species →	TRAFD1-XIAF1_ZnF	TRAFD1/XAF1, zinc finger	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR013083 all species →	Homologous_superfamily	Zinc finger, RING/FYVE/PHD-type	Interproscan
IPR049439 all species →	Domain	TRAFD1/XAF1, zinc finger	Interproscan
IPR051986 all species →	Family	Innate Immunity and Apoptosis Regulator	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR16295 all species →	TRAF-TYPE ZINC FINGER PROTEIN-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005739 all species →	Cellular Component	mitochondrion	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_012509-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_012509-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

86.1Max TPM

13.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	3.94	8.24
polyp at pH7 6	18	18	3.66	7.25
coral polyp · control treatment	16	16	13.14	43.54
coral polyp · oil and dispersant treatment	16	16	18.52	35.01
coral polyp · oil treatment	16	16	8.94	21.91
coral polyp · dispersant treatment	16	16	36.07	75.26
Polyp	10	10	15.09	86.10

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	-	8.24
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.82
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.54
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.72
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.19
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.05
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.39
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.17
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.78
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.99
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.92
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.67
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.59
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.39
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.10
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.81
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.80
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.77
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.25
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.96
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.92
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.56
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.40
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.05
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.92
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.87
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.41
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.32
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.12
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.10
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.85
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.57
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.56
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.22
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.05
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.73
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	43.54
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.08
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.30
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.05
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.76
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.55
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.06
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.37
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.61
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.57
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.29
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.54
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.27
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.03
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.87
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.38
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	35.01
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	32.30
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.75
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.66
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.29
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.69
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.02
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.75
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.67
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.77
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.12
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.65
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.94
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.78
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.85
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.10
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.91
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.35
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.57
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.89
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.52
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.14
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.99
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.83
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.55
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.39
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.30
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.17
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.16
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.98
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.74
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.59
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	75.26
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	65.44
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	56.21
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	52.93
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	49.10
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	43.07
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	41.85
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	33.42
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	31.48
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	27.77
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.24
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.03
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.99
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.07
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.06
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.17
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	86.10
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	20.00
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	10.09
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	9.86
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	6.74
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	4.74
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	4.39
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	3.88
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	3.44
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	1.69

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.