Gene detail

Detailed information of OS493_016499-T1 in Lophelia pertusa

Genomic Location: scaffold_50:2017226...2019361
NR annotation: KAJ7385415.1, Transmembrane protein 35B [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)	OG0008251 (this species only) · gene tree & orthology

Pfam domain

No Pfam domain signature was recorded for OS493_016499-T1 in Lophelia pertusa.

InterPro

InterPro term	Type	Description	Source
IPR040399 all species →	Family	Transmembrane protein 35A/B	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR13163 all species →	SPINAL CORD EXPRESSION PROTEIN 4	Interproscan

Gene Ontology

No Gene Ontology signature was recorded for OS493_016499-T1 in Lophelia pertusa.

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_016499-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_016499-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

109TPM > 0

7Conditions

65.7Max TPM

15.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	14.82	24.37
polyp at pH7 6	18	17	13.26	20.91
coral polyp · control treatment	16	16	17.37	36.88
coral polyp · oil and dispersant treatment	16	16	14.85	65.70
coral polyp · oil treatment	16	16	18.25	30.40
coral polyp · dispersant treatment	16	16	10.38	19.34
Polyp	10	10	18.81	29.28

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.37
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.74
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.65
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.99
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.16
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.96
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.77
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.28
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.24
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.13
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.69
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.56
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.43
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.57
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.76
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.56
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.16
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.67
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.91
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.41
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.67
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.56
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.85
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.62
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.70
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.91
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.77
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.64
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.27
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.04
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.93
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.84
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.30
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.96
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.38
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	36.88
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	36.38
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.82
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.14
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.72
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.01
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.93
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.64
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.50
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.53
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.26
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.24
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.04
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.29
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.46
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.13
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	65.70
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.47
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.44
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.24
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.65
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.72
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.40
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.16
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.04
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.85
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.84
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.84
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.38
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.90
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.78
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.17
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.40
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.02
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.93
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.13
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.89
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.98
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.95
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.87
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.42
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.86
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.27
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.77
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.00
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.90
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.46
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.19
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.34
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.29
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.83
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.96
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.91
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.05
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.05
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.13
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.55
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.39
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.14
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.72
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.20
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.77
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.35
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.33
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	29.28
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	26.58
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	26.21
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	24.56
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	23.30
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	17.75
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	17.13
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	13.68
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	5.22
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	4.44

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.