Gene detail

Detailed information of OS493_032050-T1 in Lophelia pertusa

Genomic Location: scaffold_232:302161...306064
NR annotation: KAJ7370484.1, hypothetical protein OS493_032050 [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
D2GVP7	Double-stranded RNA-binding protein Staufen homolog 1 OS=Ailuropoda melanoleuca OX=9646 GN=STAU1 PE=3 SV=1
O95793	Double-stranded RNA-binding protein Staufen homolog 1 OS=Homo sapiens OX=9606 GN=STAU1 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0002781 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF16482 all species →	Staufen_C	Staufen C-terminal domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR051740 all species →	Family	Double-stranded RNA-binding domain-containing protein	Interproscan
IPR032478 all species →	Domain	Staufen, C-terminal	Interproscan
IPR014720 all species →	Domain	Double-stranded RNA-binding domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR46054 all species →	MATERNAL EFFECT PROTEIN STAUFEN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003725 all species →	Molecular Function	double-stranded RNA binding	Interproscan
GO:0003729 all species →	Molecular Function	mRNA binding	Interproscan
GO:0005886 all species →	Cellular Component	plasma membrane	Interproscan
GO:0007281 all species →	Biological Process	germ cell development	Interproscan
GO:0008298 all species →	Biological Process	intracellular mRNA localization	Interproscan
GO:0010494 all species →	Cellular Component	cytoplasmic stress granule	Interproscan
GO:0035418 all species →	Biological Process	protein localization to synapse	Interproscan
GO:0043005 all species →	Cellular Component	neuron projection	Interproscan
GO:0043025 all species →	Cellular Component	neuronal cell body	Interproscan
GO:0098964 all species →	Biological Process	anterograde dendritic transport of messenger ribonucleoprotein complex	Interproscan
GO:1990124 all species →	Cellular Component	obsolete messenger ribonucleoprotein complex	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_032050-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_032050-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

160.4Max TPM

64.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	49.16	67.63
polyp at pH7 6	18	18	48.51	64.87
coral polyp · control treatment	16	16	78.58	135.23
coral polyp · oil and dispersant treatment	16	16	107.76	160.37
coral polyp · oil treatment	16	16	72.49	111.67
coral polyp · dispersant treatment	16	16	58.85	111.12
Polyp	10	10	24.42	37.98

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	-	67.63
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	64.63
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	62.90
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	61.77
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	61.74
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	61.46
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	59.65
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	58.63
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	48.66
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	48.50
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	47.44
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	46.89
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	46.85
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	43.20
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	33.36
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.96
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.07
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.60
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	64.87
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	62.41
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	60.99
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	60.17
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	60.04
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	57.02
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	56.37
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	55.70
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	54.68
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	49.23
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	48.35
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	48.18
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	44.28
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	35.49
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	34.56
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	31.02
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.55
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.22
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	135.23
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	125.45
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	95.26
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	90.70
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	87.27
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	86.99
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	85.91
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	83.71
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	78.37
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	73.50
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	66.15
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	65.92
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	54.22
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	49.86
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	40.19
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	38.51
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	160.37
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	134.10
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	134.06
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	123.86
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	118.94
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	117.09
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	116.93
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	115.86
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	112.49
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	107.14
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	101.29
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	96.24
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	86.37
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	85.06
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	75.44
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	38.91
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	111.67
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	100.54
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	99.32
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	91.47
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	91.12
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	85.53
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	79.77
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	77.15
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	73.68
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	65.73
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	62.87
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	59.69
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	57.22
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	45.32
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	40.70
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.00
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	111.12
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	110.42
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	108.94
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	70.03
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	63.77
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	62.81
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	60.14
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	57.84
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	51.40
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	48.99
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	46.75
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	44.37
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	44.06
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	42.26
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.67
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.01
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	37.98
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	33.74
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	33.05
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	29.50
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	22.70
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	20.97
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	19.96
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	19.30
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	15.87
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	11.17

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.