Gene detail

Detailed information of OS493_004717-T1 in Lophelia pertusa

Genomic Location: scaffold_9:3884681...3888017
NR annotation: KAJ7381119.1, RUN and FYVE domain-containing protein 1 [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
Q7L099	Protein RUFY3 OS=Homo sapiens OX=9606 GN=RUFY3 PE=1 SV=1
Q9D394	Protein RUFY3 OS=Mus musculus OX=10090 GN=Rufy3 PE=1 SV=1
Q5R4V2	Protein RUFY3 OS=Pongo abelii OX=9601 GN=RUFY3 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004702 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF02759 all species →	RUN	RUN domain	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR047335 all species →	Family	RUN and FYVE domain-containing protein 1-3	Interproscan
IPR037213 all species →	Homologous_superfamily	RUN domain superfamily	Interproscan
IPR004012 all species →	Domain	RUN domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR45956 all species →	RUN AND FYVE DOMAIN-CONTAINING PROTEIN 2-LIKE PROTEIN	Interproscan

Gene Ontology

No Gene Ontology signature was detected for OS493_004717-T1. This gene does have a gene model — the search simply returned no hit.

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_004717-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_004717-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

84TPM > 0

7Conditions

11.8Max TPM

3.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	8	1.47	6.08
polyp at pH7 6	18	7	1.67	6.00
coral polyp · control treatment	16	16	5.06	11.76
coral polyp · oil and dispersant treatment	16	15	3.74	6.94
coral polyp · oil treatment	16	16	4.79	10.21
coral polyp · dispersant treatment	16	15	4.61	9.77
Polyp	10	7	1.53	3.08

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.08
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.83
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.80
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.58
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.23
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.26
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.42
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.34
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359506	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
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.00
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.02
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.55
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.07
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.86
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.61
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.97
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
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359505	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
SRR11359515	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	11.76
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.53
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.98
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.51
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.43
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.91
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.50
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.09
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.07
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.68
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.52
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.79
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.58
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.97
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.91
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.78
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.94
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.57
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.24
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.19
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.05
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.97
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.47
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.01
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.96
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.76
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.89
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.52
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.30
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.83
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.16
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	10.21
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.21
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.94
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.70
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.54
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.12
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.44
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.20
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.13
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.09
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.98
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.51
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.49
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.27
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.21
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.64
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.77
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.31
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.96
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.13
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.96
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.64
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.26
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.08
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.06
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.06
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.27
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.94
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.56
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.52
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.30
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	3.08
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	2.93
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	2.60
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	2.43
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	2.02
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	1.44
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.77
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR7746667	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.