Gene detail

Detailed information of OS493_018572-T1 in Lophelia pertusa

Genomic Location: scaffold_61:2098508...2106161
NR annotation: KAJ7391521.1, hypothetical protein OS493_018572 [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
Q9HAB8	Phosphopantothenate--cysteine ligase OS=Homo sapiens OX=9606 GN=PPCS PE=1 SV=2
Q8VDG5	Phosphopantothenate--cysteine ligase OS=Mus musculus OX=10090 GN=Ppcs PE=1 SV=1
Q69S81	Phosphopantothenate--cysteine ligase 1 OS=Oryza sativa subsp. japonica OX=39947 GN=Os02g0575200 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006518 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00046 all species →	Homeodomain	Homeodomain	Domain	Interproscan
PF04127 all species →	DFP	DNA / pantothenate metabolism flavoprotein	Family	Interproscan
PF00157 all species →	Pou	Pou domain - N-terminal to homeobox domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR000327 all species →	Domain	POU-specific domain	Interproscan
IPR001356 all species →	Domain	Homeobox domain	Interproscan
IPR050255 all species →	Family	POU domain transcription factor	Interproscan
IPR010982 all species →	Homologous_superfamily	Lambda repressor-like, DNA-binding domain superfamily	Interproscan
IPR007085 all species →	Domain	DNA/pantothenate metabolism flavoprotein, C-terminal	Interproscan
IPR035929 all species →	Homologous_superfamily	CoaB-like superfamily	Interproscan
IPR017970 all species →	Conserved_site	Homeobox, conserved site	Interproscan
IPR013847 all species →	Domain	POU domain	Interproscan
IPR009057 all species →	Homologous_superfamily	Homeobox-like domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11636 all species →	POU DOMAIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003700 all species →	Molecular Function	DNA-binding transcription factor activity	Interproscan
GO:0006355 all species →	Biological Process	regulation of DNA-templated transcription	Interproscan
GO:0003677 all species →	Molecular Function	DNA binding	Interproscan
GO:0000978 all species →	Molecular Function	RNA polymerase II cis-regulatory region sequence-specific DNA binding	Interproscan
GO:0000981 all species →	Molecular Function	DNA-binding transcription factor activity, RNA polymerase II-specific	Interproscan
GO:0006357 all species →	Biological Process	regulation of transcription by RNA polymerase II	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_018572-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_018572-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

86.7Max TPM

18.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	19.69	32.54
polyp at pH7 6	18	18	18.65	24.06
coral polyp · control treatment	16	16	23.33	86.67
coral polyp · oil and dispersant treatment	16	16	19.26	55.70
coral polyp · oil treatment	16	16	18.69	25.86
coral polyp · dispersant treatment	16	16	12.97	19.71
Polyp	10	10	11.11	15.22

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.54
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	31.41
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.97
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.64
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.61
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.42
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.20
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.91
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.65
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.14
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.71
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.07
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.06
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.81
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.70
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.60
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.75
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.18
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.06
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.95
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.55
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.44
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.25
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.07
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.58
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.12
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.09
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.04
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.44
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.03
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.41
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.34
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.89
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.10
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.05
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.26
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	86.67
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.54
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.16
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.97
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.27
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.13
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.33
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.00
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.83
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.29
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.81
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.57
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.93
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.18
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.25
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.32
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	55.70
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.67
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.22
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.13
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.87
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.91
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.60
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.43
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.36
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.72
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.92
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.50
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.35
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.43
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.54
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.85
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.86
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.67
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.77
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.31
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.02
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.91
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.02
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.51
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.47
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.49
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.51
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.53
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.00
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.89
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.52
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.65
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.71
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.51
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.31
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.59
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.29
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.11
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.79
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.71
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.78
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.13
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.82
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.76
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.96
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.87
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.67
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.49
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	15.22
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	14.80
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	14.38
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	13.69
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	13.40
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	10.58
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	7.84
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	7.84
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	7.35
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	5.95

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.