Gene detail

Detailed information of OS493_021296-T1 in Lophelia pertusa

Genomic Location: scaffold_81:543811...553256
NR annotation: KAJ7378714.1, 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)

UniProt accession	Description
Q99MM4	TRAF-type zinc finger domain-containing protein 1 OS=Rattus norvegicus OX=10116 GN=Trafd1 PE=1 SV=2
Q3UDK1	TRAF-type zinc finger domain-containing protein 1 OS=Mus musculus OX=10090 GN=Trafd1 PE=1 SV=1

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
IPR049439 all species →	Domain	TRAFD1/XAF1, zinc finger	Interproscan
IPR013083 all species →	Homologous_superfamily	Zinc finger, RING/FYVE/PHD-type	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_021296-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_021296-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

100.2Max TPM

23.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	10.80	17.35
polyp at pH7 6	18	18	10.61	17.18
coral polyp · control treatment	16	16	25.97	54.21
coral polyp · oil and dispersant treatment	16	16	53.66	100.18
coral polyp · oil treatment	16	16	19.96	30.03
coral polyp · dispersant treatment	16	16	31.81	98.79
Polyp	10	10	7.15	13.03

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.35
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.03
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.34
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.25
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.57
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.35
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.51
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.32
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.90
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.45
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.98
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.52
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.33
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.59
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.32
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.25
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.98
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.27
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.18
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.02
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.61
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.92
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.58
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.52
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.10
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.64
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.70
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.29
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.23
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.95
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.94
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.60
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.09
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.83
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.18
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.61
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	54.21
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	36.93
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.60
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.54
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.88
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.02
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.51
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.30
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.60
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.81
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.67
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.59
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.16
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.36
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.97
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.37
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	100.18
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	78.69
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	77.62
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	72.83
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	69.55
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	65.78
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	61.38
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	56.42
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	53.12
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	42.79
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	41.27
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	34.33
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	29.56
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.70
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.65
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.60
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.03
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.34
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.42
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.66
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.00
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.63
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.04
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.99
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.29
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.59
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.30
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.94
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.19
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.09
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.61
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.17
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	98.79
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	57.63
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	41.22
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	38.96
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	37.55
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	32.49
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	31.05
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	30.91
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.98
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.65
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.32
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.65
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.49
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.71
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.52
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.04
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	13.03
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	11.25
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	9.59
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	8.79
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	7.84
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	7.19
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	5.43
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	4.12
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	3.51
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	0.71

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.