Gene detail

Detailed information of OS493_024952-T1 in Lophelia pertusa

Genomic Location: scaffold_119:423404...426736
NR annotation: KAJ7357439.1, hypothetical protein OS493_024952 [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)	OG0005882 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF10147 all species →	CR6_interact	Growth arrest and DNA-damage-inducible proteins-interacting protein 1	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR018472 all species →	Family	Large ribosomal subunit protein mL64	Interproscan
IPR043035 all species →	Homologous_superfamily	Large ribosomal subunit protein mL64 domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR31761 all species →	GROWTH ARREST AND DNA DAMAGE-INDUCIBLE PROTEINS-INTERACTING PROTEIN 1 GADD45GIP1	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005634 all species →	Cellular Component	nucleus	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_024952-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_024952-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

109TPM > 0

7Conditions

28.4Max TPM

6.5Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	4.56	6.50
polyp at pH7 6	18	18	5.42	12.95
coral polyp · control treatment	16	16	9.67	28.40
coral polyp · oil and dispersant treatment	16	16	8.00	26.94
coral polyp · oil treatment	16	16	8.61	13.74
coral polyp · dispersant treatment	16	16	3.89	7.32
Polyp	10	9	5.55	11.73

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	-	6.50
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.01
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.95
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.10
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.89
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.77
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.62
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.56
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.51
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.37
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.28
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.98
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.98
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.80
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.75
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.71
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.69
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.55
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.95
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.77
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.61
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.58
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.84
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.62
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.31
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.29
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.99
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.82
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.76
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.30
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.90
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.78
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.63
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.54
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.41
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.40
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.40
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.25
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.98
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.49
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.47
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.27
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.17
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.57
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.01
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.06
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.19
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.77
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.73
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.10
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.70
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.62
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.94
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.09
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.76
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.69
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.19
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.98
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.87
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.01
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.60
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.62
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.34
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.97
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.96
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.86
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.49
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.58
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.74
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.83
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.53
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.79
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.38
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.73
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.66
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.42
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.29
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.93
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.29
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.98
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.76
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.53
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.93
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.97
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.32
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.59
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.10
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.15
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.66
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.61
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.56
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.03
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.86
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.80
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.72
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.14
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.33
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.34
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.82
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.26
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	11.73
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	8.77
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	7.07
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	6.72
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	5.63
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	5.01
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	4.69
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	3.09
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	2.80
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.