Gene detail

Detailed information of OS493_032856-T1 in Lophelia pertusa

Genomic Location: scaffold_251:5066...29047
NR annotation: KAJ7352917.1, TRAF-type zinc finger [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
IPR001293 all species →	Domain	Zinc finger, TRAF-type	Interproscan
IPR051986 all species →	Family	Innate Immunity and Apoptosis Regulator	Interproscan
IPR049439 all species →	Domain	TRAFD1/XAF1, zinc finger	Interproscan
IPR013083 all species →	Homologous_superfamily	Zinc finger, RING/FYVE/PHD-type	Interproscan

PANTHER

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

Gene Ontology

GO term	Category	Description	Source
GO:0008270 all species →	Molecular Function	zinc ion binding	Interproscan
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_032856-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_032856-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

108TPM > 0

7Conditions

109.7Max TPM

10.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	3.48	7.22
polyp at pH7 6	18	17	3.59	6.00
coral polyp · control treatment	16	16	9.29	28.02
coral polyp · oil and dispersant treatment	16	16	12.60	25.88
coral polyp · oil treatment	16	16	6.22	17.63
coral polyp · dispersant treatment	16	15	27.06	54.87
Polyp	10	10	18.06	109.70

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.22
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.61
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.61
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.41
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.29
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.27
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.26
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.61
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.35
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.33
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.94
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.54
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.42
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.24
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.14
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.10
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.65
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.64
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.00
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.36
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.26
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.76
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.37
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.25
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.19
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.09
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.77
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.76
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.74
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.42
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.74
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.41
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.41
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.15
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.86
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.02
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.90
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.75
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.85
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.14
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.52
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.15
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.10
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.63
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.70
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.33
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.98
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.69
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.85
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.10
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.89
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.88
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.33
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.54
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.95
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.52
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.80
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.48
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.95
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.46
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.97
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.32
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.12
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.26
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.11
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.25
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.62
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.63
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.56
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.32
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.80
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.81
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.72
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.40
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.30
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.63
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.20
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.24
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.05
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.80
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.00
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.29
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.78
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	54.87
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	50.23
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	42.26
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	38.97
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	36.40
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	33.43
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	31.28
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	30.79
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	29.48
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.40
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.61
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.15
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.13
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.91
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.97
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	109.70
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	25.13
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	12.47
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	7.42
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	5.85
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	5.26
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	4.94
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	4.41
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	2.97
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	2.45

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.