Gene detail

Detailed information of OS493_002946-T1 in Lophelia pertusa

Genomic Location: scaffold_6:2545376...2551248
NR annotation: KAJ7340214.1, putative palmitoyltransferase zdhhc4 [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
F1QAM1	Palmitoyltransferase ZDHHC4 OS=Danio rerio OX=7955 GN=zdhhc4 PE=2 SV=1
Q9NPG8	Palmitoyltransferase ZDHHC4 OS=Homo sapiens OX=9606 GN=ZDHHC4 PE=1 SV=1
Q58DT3	Palmitoyltransferase ZDHHC4 OS=Bos taurus OX=9913 GN=ZDHHC4 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007974 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01529 all species →	DHHC	DHHC palmitoyltransferase	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR001594 all species →	Domain	Palmitoyltransferase, DHHC domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR22883 all species →	ZINC FINGER DHHC DOMAIN CONTAINING PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0016409 all species →	Molecular Function	palmitoyltransferase activity	Interproscan
GO:0005783 all species →	Cellular Component	endoplasmic reticulum	Interproscan
GO:0005794 all species →	Cellular Component	Golgi apparatus	Interproscan
GO:0006612 all species →	Biological Process	protein targeting to membrane	Interproscan
GO:0018230 all species →	Biological Process	peptidyl-L-cysteine S-palmitoylation	Interproscan
GO:0019706 all species →	Molecular Function	protein-cysteine S-palmitoyltransferase activity	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
K20003	ZDHHC4, SWF1; palmitoyltransferase ZDHHC4	EC:2.3.1.225	Membrane trafficking	ko04131	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_002946-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

94TPM > 0

7Conditions

4.2Max TPM

1.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	15	1.00	1.88
polyp at pH7 6	18	10	0.66	1.59
coral polyp · control treatment	16	16	1.48	4.19
coral polyp · oil and dispersant treatment	16	15	1.03	2.41
coral polyp · oil treatment	16	16	1.53	3.03
coral polyp · dispersant treatment	16	15	0.89	1.78
Polyp	10	7	0.73	1.72

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.88
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.74
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.63
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.43
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.30
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.28
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.27
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.17
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.08
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.05
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.99
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.98
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.95
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.66
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.54
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.59
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.44
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.39
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.24
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.20
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.18
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.05
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.02
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.01
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.74
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359517	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
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.19
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.27
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.12
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.69
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.67
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.48
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.47
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.44
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.22
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.16
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.10
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.04
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.81
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.71
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.67
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.61
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.41
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.66
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.59
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.43
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.29
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.22
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.20
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.12
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.93
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.78
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.77
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.66
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.63
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.45
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.26
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.03
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.24
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.19
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.05
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.03
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.95
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.68
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.57
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.44
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.42
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.17
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.11
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.85
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.80
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.78
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.11
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.78
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.62
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.48
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.28
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.15
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.04
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.99
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.98
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.90
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.83
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.68
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.60
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.36
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.35
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.25
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	1.72
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	1.62
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	0.98
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	0.94
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	0.79
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	0.69
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	0.55
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR7746668	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.