Gene detail

Detailed information of OS493_017849-T1 in Lophelia pertusa

Genomic Location: scaffold_58:90183...93774
NR annotation: KAJ7372578.1, Protein CL16A [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
Q9VEV4	Protein CLEC16A homolog OS=Drosophila melanogaster OX=7227 GN=ema PE=1 SV=2
Q80U30	Protein CLEC16A OS=Mus musculus OX=10090 GN=Clec16a PE=1 SV=2
Q2KHT3	Protein CLEC16A OS=Homo sapiens OX=9606 GN=CLEC16A PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003577 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF19439 all species →	CLEC16A_C	CLEC16A C-terminal	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR039272 all species →	Family	CLEC16A/TT9	Interproscan
IPR045820 all species →	Domain	CLEC16A/TT9, C-terminal	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR21481 all species →	UNCHARACTERIZED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005770 all species →	Cellular Component	late endosome	Interproscan
GO:0008333 all species →	Biological Process	endosome to lysosome transport	Interproscan
GO:0016021 all species →	Cellular Component	membrane	Interproscan
GO:0016197 all species →	Biological Process	endosomal transport	Interproscan
GO:0036020 all species →	Cellular Component	endolysosome membrane	Interproscan
GO:1901096 all species →	Biological Process	regulation of autophagosome maturation	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_017849-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_017849-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

107TPM > 0

7Conditions

33.4Max TPM

15.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	17	18.43	33.37
polyp at pH7 6	18	18	17.60	31.87
coral polyp · control treatment	16	16	17.67	24.92
coral polyp · oil and dispersant treatment	16	16	15.02	25.13
coral polyp · oil treatment	16	16	16.62	22.50
coral polyp · dispersant treatment	16	15	10.50	16.96
Polyp	10	9	13.06	26.07

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	33.37
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	31.69
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.08
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.63
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.07
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.24
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.38
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.35
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.00
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.81
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.59
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.79
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.41
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.83
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.23
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.17
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.08
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	31.87
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.35
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.79
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.59
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.63
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.12
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.26
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.57
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.50
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.24
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.45
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.14
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.67
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.48
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.37
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.99
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.59
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.17
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.92
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.31
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.67
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.94
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.68
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.36
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.18
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.60
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.83
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.80
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.82
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.81
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.85
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.67
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.50
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.81
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.13
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.72
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.81
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.09
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.91
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.39
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.49
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.63
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.46
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.30
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.13
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.91
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.81
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.31
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.28
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.01
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.50
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.16
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.77
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.01
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.42
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.14
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.75
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.39
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.53
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.92
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.94
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.24
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.57
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.85
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.84
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.94
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.96
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.71
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.87
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.46
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.37
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.83
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.63
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.02
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.48
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.34
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.38
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.15
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.02
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.09
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.67
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	26.07
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	23.77
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	18.56
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	18.16
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	16.10
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	10.01
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	8.45
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	4.80
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	4.70
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.