Gene detail

Detailed information of OS493_038796-T1 in Lophelia pertusa

Genomic Location: scaffold_724:10702...29816
NR annotation: KAJ7369459.1, hypothetical protein OS493_038796 [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
Q96PZ7	CUB and sushi domain-containing protein 1 OS=Homo sapiens OX=9606 GN=CSMD1 PE=1 SV=3
Q7Z407	CUB and sushi domain-containing protein 3 OS=Homo sapiens OX=9606 GN=CSMD3 PE=1 SV=3
Q80T79	CUB and sushi domain-containing protein 3 OS=Mus musculus OX=10090 GN=Csmd3 PE=1 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000073 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF07645 all species →	EGF_CA	Calcium-binding EGF domain	Domain	Interproscan
PF00431 all species →	CUB	CUB domain	Domain	Interproscan
PF09458 all species →	H_lectin	H-type lectin domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR000859 all species →	Domain	CUB domain	Interproscan
IPR000152 all species →	PTM	EGF-type aspartate/asparagine hydroxylation site	Interproscan
IPR049883 all species →	Domain	NOTCH1 EGF-like calcium-binding domain	Interproscan
IPR000742 all species →	Domain	EGF-like domain	Interproscan
IPR019019 all species →	Domain	H-type lectin domain	Interproscan
IPR037221 all species →	Homologous_superfamily	H-type lectin domain superfamily	Interproscan
IPR035914 all species →	Homologous_superfamily	Spermadhesin, CUB domain superfamily	Interproscan
IPR018097 all species →	Conserved_site	EGF-like calcium-binding, conserved site	Interproscan
IPR050841 all species →	Family	Developmental metalloproteases and endocytic receptors	Interproscan
IPR001881 all species →	Domain	EGF-like calcium-binding domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR24251 all species →	OVOCHYMASE-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0007155 all species →	Biological Process	cell adhesion	Interproscan
GO:0030246 all species →	Molecular Function	carbohydrate binding	Interproscan
GO:0005509 all species →	Molecular Function	calcium ion binding	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_038796-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_038796-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

87TPM > 0

7Conditions

13.7Max TPM

2.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	17	3.24	8.22
polyp at pH7 6	18	15	5.28	13.67
coral polyp · control treatment	16	12	1.23	5.59
coral polyp · oil and dispersant treatment	16	12	1.17	9.24
coral polyp · oil treatment	16	13	1.40	5.19
coral polyp · dispersant treatment	16	12	1.25	4.86
Polyp	10	6	0.53	1.57

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	-	8.22
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.47
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.97
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.01
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.71
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.95
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.62
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.16
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.11
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.19
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.15
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.01
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.86
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.66
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.57
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.82
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.73
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.67
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.67
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.01
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.98
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.91
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.33
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.78
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.63
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.59
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.77
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.88
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.79
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.92
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.13
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.99
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.59
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.78
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.66
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.61
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.49
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.30
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.02
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.69
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.59
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.53
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.28
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.08
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.24
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.30
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.47
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.29
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.11
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.82
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.72
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.59
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.38
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.34
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.29
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.20
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.19
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.42
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.99
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.05
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.84
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.50
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.37
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.52
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.46
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.34
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.32
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.24
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.20
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.86
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.70
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.07
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.57
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.51
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.98
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.83
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.73
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.65
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.59
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.51
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.07
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	1.57
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	1.50
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	0.79
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	0.77
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.49
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	0.20
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	0.00
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.