Gene detail

Detailed information of OS493_001750-T1 in Lophelia pertusa

Genomic Location: scaffold_4:694695...715571
NR annotation: KAJ7375021.1, intra-Golgi vesicle-mediated transport [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
P70403	Protein CASP OS=Mus musculus OX=10090 GN=Cux1 PE=1 SV=2
Q13948	Protein CASP OS=Homo sapiens OX=9606 GN=CUX1 PE=1 SV=2
Q5R8V1	Protein CASP OS=Pongo abelii OX=9601 GN=CUTL1 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004798 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF08172 all species →	CASP_C	CASP C terminal	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR012955 all species →	Domain	CASP, C-terminal	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR14043 all species →	CCAAT DISPLACEMENT PROTEIN-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000139 all species →	Cellular Component	Golgi membrane	Interproscan
GO:0006891 all species →	Biological Process	intra-Golgi vesicle-mediated transport	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
K09313	CUTL; homeobox protein cut-like	-	Transcription factors	ko03000	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_001750-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

15.3Max TPM

6.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	7.19	15.35
polyp at pH7 6	18	18	7.40	12.46
coral polyp · control treatment	16	16	6.54	11.29
coral polyp · oil and dispersant treatment	16	16	4.88	11.60
coral polyp · oil treatment	16	16	7.05	11.95
coral polyp · dispersant treatment	16	16	4.16	7.82
Polyp	10	9	2.99	6.73

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.35
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.69
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.13
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.11
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.67
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.46
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.02
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.90
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.54
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.53
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.44
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.19
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.87
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.58
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.46
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.13
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.08
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.26
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.46
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.40
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.03
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.12
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.63
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.69
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.58
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.48
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.18
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.10
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.64
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.45
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.36
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.69
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.39
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.85
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.83
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.29
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.29
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.63
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.91
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.78
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.90
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.55
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.49
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.64
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.06
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.69
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.13
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.98
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.45
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.09
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.37
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.70
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.60
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.97
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.40
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.20
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.11
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.72
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.34
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.55
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.38
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.96
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.58
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.53
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.38
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.21
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.05
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.04
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.95
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.17
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.86
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.14
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.76
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.70
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.10
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.90
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.44
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.79
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.76
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.10
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.00
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.93
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.76
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.50
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.82
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.29
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.03
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.51
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.33
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.26
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.20
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.89
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.11
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.72
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.55
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.24
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.84
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.69
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.61
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.43
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	6.73
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	4.72
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	4.61
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	4.17
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	3.61
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	2.24
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	1.75
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	1.40
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	0.71
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.