Gene detail

Detailed information of OS493_020297-T1 in Lophelia pertusa

Genomic Location: scaffold_74:997785...1009669
NR annotation: KAJ7384713.1, spermatogenesis-defective protein 39 [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)	OG0004703 (this species only)

Pfam domain

No Pfam domain signature was detected for OS493_020297-T1. This gene does have a gene model — the search simply returned no hit.

InterPro

InterPro term	Type	Description	Source
IPR040057 all species →	Family	Spermatogenesis-defective protein 39	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR13364 all species →	DEFECTIVE SPERMATOGENESIS PROTEIN 39	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0006886 all species →	Biological Process	intracellular protein transport	Interproscan
GO:0007034 all species →	Biological Process	vacuolar transport	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
K23287	VIPAS39, VPS16B; VPS33B-interacting protein in polarity and apical restriction	-	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_020297-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

52.3Max TPM

20.5Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	24.24	28.75
polyp at pH7 6	18	18	23.39	33.80
coral polyp · control treatment	16	16	20.27	32.55
coral polyp · oil and dispersant treatment	16	16	11.27	18.22
coral polyp · oil treatment	16	16	19.95	29.21
coral polyp · dispersant treatment	16	16	12.83	20.90
Polyp	10	10	37.25	52.33

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.75
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.58
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.03
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.85
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.30
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.17
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.17
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.62
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.12
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.43
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.20
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.18
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.34
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.25
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.11
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.95
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.89
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.44
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	33.80
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	32.08
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.07
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.88
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.49
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.18
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.08
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.44
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.70
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.69
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.48
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.15
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.62
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.90
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.26
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.46
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.34
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.32
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	32.55
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.22
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.36
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.68
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.09
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.75
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.65
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.75
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.93
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.44
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.48
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.37
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.29
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.26
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.61
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.80
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.22
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.75
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.20
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.96
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.53
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.19
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.08
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.58
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.23
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.48
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.29
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.65
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.92
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.76
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.29
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.25
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.21
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.18
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.40
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.66
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.04
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.98
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.44
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.72
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.59
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.09
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.00
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.84
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.91
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.46
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.77
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.89
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.90
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.37
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.21
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.79
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.30
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.68
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.61
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.50
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.77
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.13
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.86
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.11
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.91
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.78
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.26
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.17
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	52.33
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	48.84
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	41.99
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	41.26
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	40.92
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	33.90
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	32.88
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	28.66
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	26.28
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	25.49

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.