Gene detail

Detailed information of OS493_004718-T1 in Lophelia pertusa

Genomic Location: scaffold_9:3905504...3911672
NR annotation: KAJ7381120.1, 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
Q8R4C2	RUN and FYVE domain-containing protein 2 OS=Mus musculus OX=10090 GN=Rufy2 PE=1 SV=2
Q96T51	RUN and FYVE domain-containing protein 1 OS=Homo sapiens OX=9606 GN=RUFY1 PE=1 SV=2
Q8BIJ7	RUN and FYVE domain-containing protein 1 OS=Mus musculus OX=10090 GN=Rufy1 PE=1 SV=1

Gene family

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

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01363 all species →	FYVE	FYVE zinc finger	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR000306 all species →	Domain	FYVE zinc finger	Interproscan
IPR047335 all species →	Family	RUN and FYVE domain-containing protein 1-3	Interproscan
IPR011011 all species →	Homologous_superfamily	Zinc finger, FYVE/PHD-type	Interproscan
IPR013083 all species →	Homologous_superfamily	Zinc finger, RING/FYVE/PHD-type	Interproscan
IPR017455 all species →	Domain	Zinc finger, FYVE-related	Interproscan

PANTHER

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

Gene Ontology

GO term	Category	Description	Source
GO:0046872 all species →	Molecular Function	metal ion binding	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	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_004718-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_004718-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

107TPM > 0

7Conditions

21.9Max TPM

9.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	9.20	21.94
polyp at pH7 6	18	17	8.64	14.56
coral polyp · control treatment	16	16	11.47	20.87
coral polyp · oil and dispersant treatment	16	16	9.01	14.16
coral polyp · oil treatment	16	16	10.91	15.23
coral polyp · dispersant treatment	16	15	8.65	14.15
Polyp	10	9	6.91	19.34

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	-	21.94
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.37
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.46
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.82
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.82
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.77
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.36
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.05
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.02
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.10
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.91
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.81
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.47
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.29
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.23
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.44
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.13
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.65
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.56
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.43
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.59
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.24
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.21
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.31
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.95
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.72
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.67
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.00
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.87
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.55
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.19
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.06
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.96
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.59
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.59
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.87
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.68
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.08
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.39
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.21
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.75
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.92
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.67
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.14
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.86
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.84
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.33
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.20
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.62
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.97
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.05
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.16
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.49
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.43
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.27
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.60
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.56
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.51
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.44
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.92
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.61
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.48
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.46
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.43
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.07
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.97
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.79
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.23
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.81
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.58
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.46
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.80
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.44
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.14
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.85
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.76
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.10
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.90
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.70
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.41
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.39
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.29
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.68
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.15
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.28
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.14
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.02
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.95
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.61
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.98
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.20
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.34
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.19
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.77
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.75
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.37
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.04
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.56
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	19.34
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	11.81
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	7.50
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	6.99
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	6.43
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	6.43
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	4.99
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	4.19
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	1.40
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.