Gene detail

Detailed information of OS493_002474-T1 in Lophelia pertusa

Genomic Location: scaffold_5:2764497...2768623
NR annotation: KAJ7365757.1, Ubiquitin-associated 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)

No Swiss-Prot hit above the reporting threshold for this gene.

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006259 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF21267 all species →	UBAP-1_UBA2	Ubiquitin-associated protein 1, UBA2 domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR009060 all species →	Homologous_superfamily	UBA-like superfamily	Interproscan
IPR038870 all species →	Family	Ubiquitin-associated protein 1	Interproscan
IPR015940 all species →	Domain	Ubiquitin-associated domain	Interproscan
IPR000949 all species →	Domain	ELM2 domain	Interproscan
IPR049467 all species →	Domain	Ubiquitin-associated protein 1-like, UBA2 domain	Interproscan
IPR042575 all species →	Homologous_superfamily	Ubiquitin-associated protein 1, C-terminal	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR15960 all species →	LD44032P	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0000813 all species →	Cellular Component	ESCRT I complex	Interproscan
GO:0043130 all species →	Molecular Function	ubiquitin binding	Interproscan
GO:0043162 all species →	Biological Process	ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway	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_002474-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_002474-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

109TPM > 0

7Conditions

44.1Max TPM

19.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	14.67	23.09
polyp at pH7 6	18	18	17.14	21.33
coral polyp · control treatment	16	16	18.75	35.92
coral polyp · oil and dispersant treatment	16	16	24.04	34.69
coral polyp · oil treatment	16	16	17.75	25.21
coral polyp · dispersant treatment	16	16	25.85	44.14
Polyp	10	9	13.66	19.80

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.09
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.11
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.11
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.00
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.88
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.63
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.25
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.04
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.50
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.64
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.90
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.76
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.25
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.03
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.54
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.74
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.33
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.25
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.33
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.71
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.40
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.68
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.62
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.54
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.50
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.22
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.69
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.55
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.37
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.95
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.94
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.92
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.41
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.04
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.87
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.80
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	35.92
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.92
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.64
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.32
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.23
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.99
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.70
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.62
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.91
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.67
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.87
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.75
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.01
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.93
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.93
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.64
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	34.69
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	32.86
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	32.09
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	28.44
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.25
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.19
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.72
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.32
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.21
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.92
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.46
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.32
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.04
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.00
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.43
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.65
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.21
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.33
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.88
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.59
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.14
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.30
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.12
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.25
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.06
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.58
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.19
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.86
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.20
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.07
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.20
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.98
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	44.14
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	43.07
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	37.05
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	33.66
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	29.97
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	29.08
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	28.59
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	26.58
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.30
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.94
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.60
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.90
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.88
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.34
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.97
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.55
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	19.80
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	18.59
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	18.05
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	16.86
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	15.11
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	13.83
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	12.32
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	11.56
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	10.47
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.