Gene detail

Detailed information of OS493_006320-T1 in Lophelia pertusa

Genomic Location: scaffold_13:1988772...1998524
NR annotation: KAJ7393349.1, hypothetical protein OS493_006320 [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)	OG0002766 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF15295 all species →	CCDC50_N	Coiled-coil domain-containing protein 50 N-terminus	Coiled-coil	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR029311 all species →	Domain	Coiled-coil domain-containing protein 50, N-terminal	Interproscan
IPR039303 all species →	Family	Coiled-coil domain-containing protein 50	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR22115 all species →	C3ORF6 PROTEIN-RELATED	Interproscan

Gene Ontology

No Gene Ontology signature was detected for OS493_006320-T1. This gene does have a gene model — the search simply returned no hit.

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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K25949	CCDC50; coiled-coil domain-containing protein 50	-	Membrane trafficking	ko04131	deepkoala

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.

Expression pattern (RNA-seq)

Transcript abundance of OS493_006320-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

26.3Max TPM

11.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	10.98	19.47
polyp at pH7 6	18	18	11.33	15.13
coral polyp · control treatment	16	16	13.91	26.29
coral polyp · oil and dispersant treatment	16	16	11.16	20.02
coral polyp · oil treatment	16	16	11.10	17.96
coral polyp · dispersant treatment	16	16	9.98	17.82
Polyp	10	10	6.62	11.01

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	-	19.47
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.71
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.38
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.27
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.65
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.70
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.37
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.33
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.25
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.24
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.54
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.14
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.08
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.57
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.50
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.45
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.69
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.30
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.13
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.43
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.20
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.15
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.96
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.95
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.67
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.74
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.55
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.42
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.64
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.03
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.69
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.94
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.82
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.54
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.90
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.22
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.29
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.45
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.57
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.29
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.70
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.60
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.52
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.37
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.24
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.65
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.08
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.64
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.54
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.64
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.70
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.23
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.02
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.59
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.56
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.48
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.73
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.50
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.05
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.66
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.97
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.43
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.40
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.20
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.24
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.47
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.80
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.50
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.96
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.35
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.25
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.53
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.05
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.81
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.02
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.67
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.35
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.20
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.77
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.03
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.93
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.73
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.44
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.58
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.82
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.23
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.39
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.69
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.86
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.67
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.47
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.31
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.39
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.88
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.81
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.50
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.06
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.07
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.11
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.48
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	11.01
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	10.37
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	9.28
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	8.69
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	7.02
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	5.15
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	4.83
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	4.39
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	3.65
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	1.76

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.