Gene detail

Detailed information of OS493_034150-T1 in Lophelia pertusa

Genomic Location: scaffold_283:24788...29460
NR annotation: KAJ7389016.1, Collagenase NC10 and Endostatin [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
P39059	Collagen alpha-1(XV) chain OS=Homo sapiens OX=9606 GN=COL15A1 PE=1 SV=2
O35206	Collagen alpha-1(XV) chain OS=Mus musculus OX=10090 GN=Col15a1 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0002240 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF06482 all species →	Endostatin	Collagenase NC10 and Endostatin	Domain	Interproscan
PF20010 all species →	Collagen_trimer	Collagen trimerization domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR010515 all species →	Domain	Collagenase NC10/endostatin	Interproscan
IPR016186 all species →	Homologous_superfamily	C-type lectin-like/link domain superfamily	Interproscan
IPR045463 all species →	Domain	Collagen type XV/XVIII, trimerization domain	Interproscan
IPR016187 all species →	Homologous_superfamily	C-type lectin fold	Interproscan

PANTHER

No PANTHER signature was recorded for OS493_034150-T1 in Lophelia pertusa.

Gene Ontology

No Gene Ontology signature was recorded for OS493_034150-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_034150-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_034150-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

31.4Max TPM

12.9Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	15.18	30.92
polyp at pH7 6	18	18	17.51	23.84
coral polyp · control treatment	16	16	11.58	19.46
coral polyp · oil and dispersant treatment	16	16	10.33	26.28
coral polyp · oil treatment	16	16	14.44	31.38
coral polyp · dispersant treatment	16	16	11.03	20.94
Polyp	10	10	6.83	18.36

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	-	30.92
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.08
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.33
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.15
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.05
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.16
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.12
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.88
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.73
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.59
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.76
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.75
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.35
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.25
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.14
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.85
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.76
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.44
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.84
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.54
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.66
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.45
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.38
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.08
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.04
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.63
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.59
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.12
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.96
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.93
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.40
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.95
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.27
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.97
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.70
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.60
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.46
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.79
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.24
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.49
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.07
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.36
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.86
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.00
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.71
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.56
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.54
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.21
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.80
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.62
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.63
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.90
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.28
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.51
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.86
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.74
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.61
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.86
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.92
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.88
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.75
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.54
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.06
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.42
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.91
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.32
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.61
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.98
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.38
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.31
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.84
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.15
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.64
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.50
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.61
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.17
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.45
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.85
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.76
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.56
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.74
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.64
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.19
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.30
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.94
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.38
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.45
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.33
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.82
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.33
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.61
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.60
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.35
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.14
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.19
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.71
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.89
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.75
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.76
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.20
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	18.36
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	14.84
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	7.96
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	7.83
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	4.87
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	4.27
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	3.86
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	3.09
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	2.15
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	1.05

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.