Gene detail

Detailed information of OS493_002571-T1 in Lophelia pertusa

Genomic Location: scaffold_5:4651804...4667889
NR annotation: KAJ7365850.1, Collagen type IV alpha-3-binding protein [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
Q6NRZ4	Ceramide transfer protein OS=Xenopus laevis OX=8355 GN=cert1 PE=2 SV=1
Q6P3Q6	Ceramide transfer protein OS=Xenopus tropicalis OX=8364 GN=cert1 PE=2 SV=1
Q6VVX2	Ceramide transfer protein OS=Cricetulus griseus OX=10029 GN=CERT1 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007027 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00169 all species →	PH	PH domain	Domain	Interproscan
PF01852 all species →	START	START domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR011993 all species →	Homologous_superfamily	PH-like domain superfamily	Interproscan
IPR001849 all species →	Domain	Pleckstrin homology domain	Interproscan
IPR051213 all species →	Family	START domain-containing lipid transfer	Interproscan
IPR023393 all species →	Homologous_superfamily	START-like domain superfamily	Interproscan
IPR002913 all species →	Domain	START domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR19308 all species →	PHOSPHATIDYLCHOLINE TRANSFER PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0035621 all species →	Biological Process	ER to Golgi ceramide transport	Interproscan
GO:0008289 all species →	Molecular Function	lipid 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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K08283	COL4A3BP; collagen type IV alpha-3-binding protein	-	Domain-containing proteins not elsewhere classified	ko04990	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_002571-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

54.9Max TPM

31.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	32.02	42.85
polyp at pH7 6	18	18	32.20	43.41
coral polyp · control treatment	16	16	37.26	54.92
coral polyp · oil and dispersant treatment	16	16	32.35	40.27
coral polyp · oil treatment	16	16	32.87	43.98
coral polyp · dispersant treatment	16	16	27.61	44.03
Polyp	10	10	25.57	39.23

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	-	42.85
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	42.03
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	42.00
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	37.18
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	35.34
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	34.22
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	34.13
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.07
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	31.02
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.39
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.30
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.07
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.79
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.44
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.05
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.97
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.88
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.68
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	43.41
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	39.04
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	37.98
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	37.24
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	36.24
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	35.28
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	34.27
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	33.21
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	32.95
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	31.86
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	31.65
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.69
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.59
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.66
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.21
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.38
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.26
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.60
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	54.92
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	46.01
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	45.61
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	44.94
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	42.39
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	42.20
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	37.63
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	36.82
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	35.83
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	35.33
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.99
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.60
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.94
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.13
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.60
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.23
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	40.27
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	40.15
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	38.24
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	37.33
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	34.84
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	34.30
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	34.11
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	31.98
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	31.89
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	31.38
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	31.34
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	30.41
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	29.76
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.65
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.44
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.55
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	43.98
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	41.40
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	41.35
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	39.13
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	38.09
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	36.77
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	36.18
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	35.78
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	34.21
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.81
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.08
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.84
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.51
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.34
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.83
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.66
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	44.03
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	39.87
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	38.31
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	36.76
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	35.15
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	34.01
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	31.61
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	29.35
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	29.20
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	26.09
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.72
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.59
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.19
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.80
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.12
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.94
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	39.23
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	37.70
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	35.09
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	28.52
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	28.31
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	22.63
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	17.31
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	15.98
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	15.89
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	15.06

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.