Gene detail

Detailed information of OS493_001437-T1 in Lophelia pertusa

Genomic Location: scaffold_3:1552143...1573163
NR annotation: KAJ7381315.1, RWD [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
Q9CPR1	RWD domain-containing protein 4 OS=Mus musculus OX=10090 GN=Rwdd4 PE=2 SV=1
Q569B7	RWD domain-containing protein 4 OS=Rattus norvegicus OX=10116 GN=Rwdd4 PE=2 SV=1
Q6NW29	RWD domain-containing protein 4 OS=Homo sapiens OX=9606 GN=RWDD4 PE=1 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0008512 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF05773 all species →	RWD	RWD domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR006575 all species →	Domain	RWD domain	Interproscan
IPR042770 all species →	Family	RWD domain-containing protein 4	Interproscan
IPR016135 all species →	Homologous_superfamily	Ubiquitin-conjugating enzyme/RWD-like	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR21275 all species →	UNCHARACTERIZED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein 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_001437-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_001437-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

65.3Max TPM

31.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	33.27	50.67
polyp at pH7 6	18	18	36.03	59.90
coral polyp · control treatment	16	16	33.83	47.47
coral polyp · oil and dispersant treatment	16	16	27.82	65.34
coral polyp · oil treatment	16	16	31.13	44.38
coral polyp · dispersant treatment	16	16	22.74	42.70
Polyp	10	10	38.19	60.65

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	50.67
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	49.78
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	40.59
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	37.04
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	36.41
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	34.89
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	34.32
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.09
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	31.20
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.69
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.14
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.41
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.35
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.30
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.13
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.97
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.26
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.54
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	59.90
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	47.62
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	40.72
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	39.92
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	38.51
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	38.45
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	37.51
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	36.19
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	35.35
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	33.30
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	32.90
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	32.34
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	31.50
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	31.14
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.81
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.35
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.89
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.07
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	47.47
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	46.54
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	43.75
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	40.32
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	38.67
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	38.57
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	37.73
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	36.37
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.45
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.73
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	32.07
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.16
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.33
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.00
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.24
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.82
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	65.34
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	33.06
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	33.02
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	30.58
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	29.62
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	29.61
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	28.35
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	28.19
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	28.08
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.63
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.67
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.07
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.41
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.01
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.04
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.50
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	44.38
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	41.74
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	40.20
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	38.69
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	35.85
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	35.64
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	34.67
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	32.26
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.57
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.70
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.03
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.05
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.04
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.24
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.27
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.74
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	42.70
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	39.91
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	37.96
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	26.46
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.20
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.76
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.18
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.49
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.07
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.42
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.87
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.78
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.65
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.48
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.04
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.82
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	60.65
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	56.62
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	44.74
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	34.37
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	33.56
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	33.23
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	32.24
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	29.93
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	29.41
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	27.10

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.