Gene detail

Detailed information of OS493_002473-T1 in Lophelia pertusa

Genomic Location: scaffold_5:2755661...2763947
NR annotation: KAJ7365756.1, 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)

UniProt accession	Description
Q9NZ09	Ubiquitin-associated protein 1 OS=Homo sapiens OX=9606 GN=UBAP1 PE=1 SV=1
Q5XIS7	Ubiquitin-associated protein 1 OS=Rattus norvegicus OX=10116 GN=Ubap1 PE=2 SV=1
Q8BH48	Ubiquitin-associated protein 1 OS=Mus musculus OX=10090 GN=Ubap1 PE=1 SV=1

Gene family

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

Pfam domain

No Pfam domain signature was detected for OS493_002473-T1. This gene does have a gene model — the search simply returned no hit.

InterPro

InterPro term	Type	Description	Source
IPR023340 all species →	Domain	UMA domain	Interproscan
IPR038870 all species →	Family	Ubiquitin-associated protein 1	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR15960 all species →	LD44032P	Interproscan

Gene Ontology

GO term	Category	Description	Source
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_002473-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_002473-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

41.5Max TPM

11.9Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	5.81	8.91
polyp at pH7 6	18	16	6.77	10.78
coral polyp · control treatment	16	16	14.39	34.12
coral polyp · oil and dispersant treatment	16	16	16.91	33.96
coral polyp · oil treatment	16	16	10.99	14.82
coral polyp · dispersant treatment	16	16	22.53	41.47
Polyp	10	9	4.81	8.34

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.91
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.83
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.22
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.52
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.14
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.54
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.42
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.16
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.20
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.05
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.85
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.80
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.58
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.43
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.40
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.00
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.98
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.50
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.78
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.61
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.06
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.02
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.72
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.84
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.32
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.31
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.26
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.91
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.46
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.07
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.77
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.01
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.00
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.71
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	34.12
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.45
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.04
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.59
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.41
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.41
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.17
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.97
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.94
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.88
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.88
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.14
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.10
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.35
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.05
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.78
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	33.96
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.79
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.59
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.19
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.99
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.94
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.40
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.37
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.73
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.90
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.82
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.90
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.77
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.59
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.05
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.57
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.82
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.74
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.15
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.68
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.88
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.83
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.03
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.89
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.75
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.99
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.17
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.43
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.77
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.34
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.79
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.55
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	41.47
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	37.02
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	33.32
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	32.88
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.02
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.75
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.08
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.60
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.49
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.26
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.83
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.61
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.35
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.93
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.43
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.36
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	8.34
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	8.22
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	6.18
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	5.38
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	5.19
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	4.21
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	4.05
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	3.97
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	2.58
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.