Gene detail

Detailed information of OS493_023485-T1 in Lophelia pertusa

Genomic Location: scaffold_104:706424...710735
NR annotation: KAJ7384157.1, Spondin-1 [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
P35447	Spondin-1 OS=Xenopus laevis OX=8355 GN=spon1 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0002840 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF19030 all species →	TSP1_ADAMTS	Thrombospondin type 1 domain	Domain	Interproscan
PF12661 all species →	hEGF	Human growth factor-like EGF	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR036383 all species →	Homologous_superfamily	Thrombospondin type-1 (TSP1) repeat superfamily	Interproscan
IPR000884 all species →	Repeat	Thrombospondin type-1 (TSP1) repeat	Interproscan
IPR000742 all species →	Domain	EGF-like domain	Interproscan
IPR050969 all species →	Family	Developmental Signaling Modulators	Interproscan
IPR013032 all species →	Conserved_site	EGF-like, conserved site	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR14949 all species →	EGF-LIKE-DOMAIN, MULTIPLE 7, 8	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005102 all species →	Molecular Function	signaling receptor binding	Interproscan
GO:0005576 all species →	Cellular Component	extracellular region	Interproscan
GO:0009986 all species →	Cellular Component	cell surface	Interproscan
GO:0048856 all species →	Biological Process	anatomical structure development	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_023485-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_023485-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

34.8Max TPM

13.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	12.02	18.84
polyp at pH7 6	18	18	16.02	34.50
coral polyp · control treatment	16	16	16.38	21.40
coral polyp · oil and dispersant treatment	16	16	16.35	31.30
coral polyp · oil treatment	16	16	14.32	34.79
coral polyp · dispersant treatment	16	16	12.19	23.23
Polyp	10	9	4.75	10.32

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.84
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.41
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.90
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.84
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.56
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.14
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.28
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.23
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.13
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.96
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.45
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.23
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.12
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.90
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.78
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.64
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.22
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.68
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	34.50
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	31.30
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.52
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.59
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.52
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.31
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.20
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.49
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.36
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.36
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.23
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.79
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.53
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.14
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.30
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.89
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.72
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.54
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.40
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.53
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.11
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.47
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.35
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.20
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.02
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.46
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.91
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.53
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.78
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.09
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.26
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.93
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.28
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.83
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	31.30
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	30.73
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	29.42
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.97
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.51
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.00
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.25
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.10
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.66
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.32
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.81
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.28
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.14
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.12
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.70
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.21
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	34.79
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.46
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.18
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.02
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.03
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.14
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.39
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.11
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.16
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.78
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.14
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.55
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.98
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.79
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.49
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.16
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.23
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.39
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.71
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.93
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.49
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.65
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.66
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.94
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.56
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.36
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.26
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.62
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.84
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.00
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.43
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.95
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	10.32
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	5.77
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	5.63
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	5.47
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	4.98
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	4.53
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	4.46
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	4.25
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	2.08
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.