Gene detail

Detailed information of OS493_013509-T1 in Lophelia pertusa

Genomic Location: scaffold_37:539984...542755
NR annotation: KAJ7392137.1, mitochondrial translation [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)	OG0009420 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF06747 all species →	CHCH	CHCH domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR009069 all species →	Homologous_superfamily	Cysteine alpha-hairpin motif superfamily	Interproscan
IPR010625 all species →	Domain	CHCH	Interproscan
IPR033620 all species →	Family	Small ribosomal subunit protein mS37, metazoan	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR31278 all species →	CHCHD1	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003723 all species →	Molecular Function	RNA binding	Interproscan
GO:0005761 all species →	Cellular Component	mitochondrial ribosome	Interproscan
GO:0032543 all species →	Biological Process	mitochondrial translation	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_013509-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_013509-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

58.1Max TPM

22.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	24.20	52.84
polyp at pH7 6	18	18	23.38	42.65
coral polyp · control treatment	16	16	26.40	51.52
coral polyp · oil and dispersant treatment	16	16	20.65	58.12
coral polyp · oil treatment	16	16	23.00	40.37
coral polyp · dispersant treatment	16	16	16.53	30.94
Polyp	10	10	21.36	36.53

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	52.84
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.41
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.23
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.85
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.75
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.74
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.71
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.83
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.76
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.41
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.22
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.26
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.85
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.43
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.41
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.08
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.81
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.97
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	42.65
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	31.96
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.85
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.24
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.99
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.76
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.76
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.54
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.65
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.41
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.63
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.76
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.42
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.39
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.88
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.49
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.49
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.99
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	51.52
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	37.33
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	37.26
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	32.45
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	32.10
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.17
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.84
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.67
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.75
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.58
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.49
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.03
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.54
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.31
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.31
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.01
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	58.12
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	30.80
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.47
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.83
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.32
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.44
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.74
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.07
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.43
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.23
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.39
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.11
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.61
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.56
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.74
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.49
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	40.37
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	37.96
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	33.68
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.52
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.36
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.07
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.95
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.71
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.74
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.86
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.52
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.49
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.57
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.81
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.71
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.63
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	30.94
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	30.10
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.16
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.88
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.62
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.89
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.87
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.43
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.17
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.79
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.00
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.15
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.97
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.82
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.03
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.66
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	36.53
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	24.17
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	22.07
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	21.26
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	21.19
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	20.92
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	19.58
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	16.82
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	16.41
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	14.65

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.