Gene detail

Detailed information of OS493_010851-T1 in Lophelia pertusa

Genomic Location: scaffold_27:1068187...1079003
NR annotation: KAJ7380140.1, hypothetical protein OS493_010851 [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)	OG0005973 (this species only)
Ubiquitin family	UBD\|Alpha-Helix\|UBA · all ubiquitin genes in this species
Ubiquitin family	ULD\|UFD\|UBX · all ubiquitin genes in this species

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00789 all species →	UBX	UBX domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR001012 all species →	Domain	UBX domain	Interproscan
IPR015940 all species →	Domain	Ubiquitin-associated domain	Interproscan
IPR029071 all species →	Homologous_superfamily	Ubiquitin-like domain superfamily	Interproscan
IPR009060 all species →	Homologous_superfamily	UBA-like superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR46340 all species →	UBX DOMAIN-CONTAINING PROTEIN 1	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0031397 all species →	Biological Process	negative regulation of protein ubiquitination	Interproscan
GO:0032435 all species →	Biological Process	negative regulation of proteasomal ubiquitin-dependent protein catabolic process	Interproscan
GO:0036435 all species →	Molecular Function	K48-linked polyubiquitin modification-dependent protein binding	Interproscan
GO:1903094 all species →	Biological Process	negative regulation of protein K48-linked deubiquitination	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_010851-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_010851-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

29.7Max TPM

10.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	10.40	17.42
polyp at pH7 6	18	18	9.25	14.83
coral polyp · control treatment	16	16	12.97	25.21
coral polyp · oil and dispersant treatment	16	16	9.89	19.62
coral polyp · oil treatment	16	16	10.95	19.28
coral polyp · dispersant treatment	16	16	8.72	16.91
Polyp	10	10	7.46	29.66

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.42
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.70
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.49
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.36
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.30
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.28
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.23
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.31
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.64
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.74
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.58
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.72
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.26
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.20
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.13
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.83
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.65
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.43
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.83
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.34
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.90
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.52
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.10
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.72
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.16
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.07
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.70
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.98
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.30
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.26
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.94
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.52
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.47
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.70
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.43
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.56
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.21
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.31
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.91
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.61
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.57
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.06
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.56
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.43
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.53
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.92
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.33
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.73
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.42
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.76
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.37
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.83
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.62
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.23
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.09
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.85
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.56
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.85
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.27
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.50
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.82
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.79
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.51
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.31
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.32
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.14
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.11
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.29
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.28
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.24
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.40
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.50
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.90
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.53
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.22
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.52
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.20
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.28
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.00
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.60
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.46
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.41
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.40
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.32
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.91
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.29
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.12
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.33
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.94
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.15
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.88
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.17
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.45
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.02
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.20
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.60
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.15
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.59
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.04
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.68
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	29.66
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	10.54
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	7.57
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	5.85
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	5.61
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	5.43
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	4.17
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	2.45
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	1.74
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	1.57

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.