Gene detail

Detailed information of OS493_013478-T1 in Lophelia pertusa

Genomic Location: scaffold_37:186368...194878
NR annotation: KAJ7392111.1, hypothetical protein OS493_013478 [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
Q5F362	Cell cycle control protein 50A OS=Gallus gallus OX=9031 GN=TMEM30A PE=2 SV=1
Q5R6C0	Cell cycle control protein 50A OS=Pongo abelii OX=9601 GN=TMEM30A PE=2 SV=1
Q8VEK0	Cell cycle control protein 50A OS=Mus musculus OX=10090 GN=Tmem30a PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003145 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF03381 all species →	CDC50	LEM3 (ligand-effect modulator 3) family / CDC50 family	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR005045 all species →	Family	CDC50/LEM3 family	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10926 all species →	CELL CYCLE CONTROL PROTEIN 50	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0016020 all species →	Cellular Component	membrane	Interproscan
GO:0005783 all species →	Cellular Component	endoplasmic reticulum	Interproscan
GO:0005794 all species →	Cellular Component	Golgi apparatus	Interproscan
GO:0005886 all species →	Cellular Component	plasma membrane	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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K26935	TMEM30A, CDC50A; cell cycle control protein 50A	-	Efferocytosis	ko04148	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_013478-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

147.7Max TPM

55.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	45.06	65.40
polyp at pH7 6	18	18	45.58	70.19
coral polyp · control treatment	16	16	72.37	147.73
coral polyp · oil and dispersant treatment	16	16	69.51	134.51
coral polyp · oil treatment	16	16	59.98	85.63
coral polyp · dispersant treatment	16	16	47.26	71.58
Polyp	10	10	44.53	99.90

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	65.40
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	64.96
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	55.45
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	52.52
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	50.59
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	49.70
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	48.80
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	46.78
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	42.97
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	42.68
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	41.27
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	40.85
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	39.53
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	39.37
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	38.05
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	37.65
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.79
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.79
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	70.19
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	69.28
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	61.57
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	58.65
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	56.51
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	53.48
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	51.47
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	47.76
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	46.88
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	46.64
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	44.94
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	44.73
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	44.24
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	40.45
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.22
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.03
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.21
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.21
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	147.73
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	92.75
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	88.41
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	86.91
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	86.73
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	82.44
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	81.42
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	74.87
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	74.76
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	62.38
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	61.30
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	59.48
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	49.07
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	45.19
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	36.20
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.20
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	134.51
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	88.44
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	85.76
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	84.42
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	77.81
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	73.91
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	70.20
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	67.17
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	66.64
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	63.97
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	61.77
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	58.27
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	55.17
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	50.63
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	49.99
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.57
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	85.63
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	82.05
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	80.11
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	73.85
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	73.14
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	70.70
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	65.42
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	65.42
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	64.29
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	61.47
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	54.01
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	52.06
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	51.28
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	36.07
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.73
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.48
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	71.58
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	65.16
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	60.87
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	57.63
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	55.21
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	53.93
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	53.53
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	52.58
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	51.30
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	50.38
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	44.43
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	43.22
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	41.17
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	38.29
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.19
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.61
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	99.90
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	67.99
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	52.54
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	44.81
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	43.60
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	35.30
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	32.77
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	31.77
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	22.59
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	13.99

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.