Gene detail

Detailed information of OS493_018078-T1 in Lophelia pertusa

Genomic Location: scaffold_59:217166...227847
NR annotation: KAJ7360094.1, Protein transport protein Sec23A [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
Q05AS9	Protein transport protein Sec23A OS=Xenopus tropicalis OX=8364 GN=sec23a PE=2 SV=1
Q7SZE5	Protein transport protein Sec23A OS=Danio rerio OX=7955 GN=sec23a PE=2 SV=1
Q3SZN2	Protein transport protein Sec23B OS=Bos taurus OX=9913 GN=SEC23B PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0005212 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF04811 all species →	Sec23_trunk	Sec23/Sec24 trunk domain	Domain	Interproscan
PF04810 all species →	zf-Sec23_Sec24	Sec23/Sec24 zinc finger	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR006896 all species →	Domain	Sec23/Sec24, trunk domain	Interproscan
IPR036465 all species →	Homologous_superfamily	von Willebrand factor A-like domain superfamily	Interproscan
IPR037364 all species →	Family	Protein transport protein Sec23	Interproscan
IPR036174 all species →	Homologous_superfamily	Zinc finger, Sec23/Sec24-type superfamily	Interproscan
IPR006895 all species →	Domain	Zinc finger, Sec23/Sec24-type	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11141 all species →	PROTEIN TRANSPORT PROTEIN SEC23	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0006886 all species →	Biological Process	intracellular protein transport	Interproscan
GO:0006888 all species →	Biological Process	endoplasmic reticulum to Golgi vesicle-mediated transport	Interproscan
GO:0030127 all species →	Cellular Component	COPII vesicle coat	Interproscan
GO:0005096 all species →	Molecular Function	GTPase activator activity	Interproscan
GO:0070971 all species →	Cellular Component	endoplasmic reticulum exit site	Interproscan
GO:0090110 all species →	Biological Process	COPII-coated vesicle cargo loading	Interproscan
GO:0008270 all species →	Molecular Function	zinc 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_018078-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_018078-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

91.8Max TPM

28.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	19.10	29.86
polyp at pH7 6	18	18	21.02	32.34
coral polyp · control treatment	16	16	32.70	91.76
coral polyp · oil and dispersant treatment	16	16	38.39	72.10
coral polyp · oil treatment	16	16	22.87	43.02
coral polyp · dispersant treatment	16	16	43.77	64.96
Polyp	10	10	18.48	32.55

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	-	29.86
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.23
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.53
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.16
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.79
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.41
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.79
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.86
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.77
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.63
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.44
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.27
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.19
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.08
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.89
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.91
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.13
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.93
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	32.34
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	31.84
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.49
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.15
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.68
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.26
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.67
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.22
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.83
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.04
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.85
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.09
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.89
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.74
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.34
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.66
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.55
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.71
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	91.76
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	49.13
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	39.64
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	36.93
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	35.99
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.60
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.60
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.81
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.16
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.00
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.35
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.99
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.63
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.60
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.47
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.51
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	72.10
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	54.05
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	49.90
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	48.81
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	47.60
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	41.57
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	41.21
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	39.39
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	38.34
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	35.28
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.20
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.66
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.07
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.94
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.42
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.68
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	43.02
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	33.42
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.45
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.00
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.96
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.84
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.01
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.71
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.99
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.68
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.49
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.96
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.02
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.10
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.44
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.75
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	64.96
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	61.50
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	59.56
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	57.05
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	56.83
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	56.36
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	47.50
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	46.38
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	46.23
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	42.68
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	39.52
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	38.17
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	36.48
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	35.44
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.60
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.00
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	32.55
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	23.32
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	21.29
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	18.18
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	18.14
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	17.09
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	15.00
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	14.67
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	14.47
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	10.11

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.