Gene detail

Detailed information of OS493_023614-T1 in Lophelia pertusa

Genomic Location: scaffold_105:766542...782652
NR annotation: KAJ7378359.1, UBX domain-containing protein 11 [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
Q9D572	UBX domain-containing protein 11 OS=Mus musculus OX=10090 GN=Ubxn11 PE=1 SV=1
Q5T124	UBX domain-containing protein 11 OS=Homo sapiens OX=9606 GN=UBXN11 PE=1 SV=2
Q8R512	UBX domain-containing protein 11 OS=Rattus norvegicus OX=10116 GN=Ubxn11 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004067 (this species only)
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
PF08059 all species →	SEP	SEP domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR036241 all species →	Homologous_superfamily	NSFL1 cofactor p47, SEP domain superfamily	Interproscan
IPR029071 all species →	Homologous_superfamily	Ubiquitin-like domain superfamily	Interproscan
IPR001012 all species →	Domain	UBX domain	Interproscan
IPR012989 all species →	Domain	SEP domain	Interproscan
IPR000626 all species →	Domain	Ubiquitin-like domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR23333 all species →	UBX DOMAIN CONTAINING PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0043130 all species →	Molecular Function	ubiquitin binding	Interproscan
GO:0043161 all species →	Biological Process	proteasome-mediated ubiquitin-dependent protein catabolic process	Interproscan
GO:0005515 all species →	Molecular Function	protein binding	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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K24353	UBXN11; UBX domain-containing protein 11	-	Membrane trafficking	ko04131	deepkoala

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.

Expression pattern (RNA-seq)

Transcript abundance of OS493_023614-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

32.7Max TPM

14.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	11.38	19.66
polyp at pH7 6	18	17	10.31	20.52
coral polyp · control treatment	16	16	19.75	28.18
coral polyp · oil and dispersant treatment	16	16	14.67	23.61
coral polyp · oil treatment	16	16	19.52	27.39
coral polyp · dispersant treatment	16	16	11.36	20.76
Polyp	10	10	17.99	32.72

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	-	19.66
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.24
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.20
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.41
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.49
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.35
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.72
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.59
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.10
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.80
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.73
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.68
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.15
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.08
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.42
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.37
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.61
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.30
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.52
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.34
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.16
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.72
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.77
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.25
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.76
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.26
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.21
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.72
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.34
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.29
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.21
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.90
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.64
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.29
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.21
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.18
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.81
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.06
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.57
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.78
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.47
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.44
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.88
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.86
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.65
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.39
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.63
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.87
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.61
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.03
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.68
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.61
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.73
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.09
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.65
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.06
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.47
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.40
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.24
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.52
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.35
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.67
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.63
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.72
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.67
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.03
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.83
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.39
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.39
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.42
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.90
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.27
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.65
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.56
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.42
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.28
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.67
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.45
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.80
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.68
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.36
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.58
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.56
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.76
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.88
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.50
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.30
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.24
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.51
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.34
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.08
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.01
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.04
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.02
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.00
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.15
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.25
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.71
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.96
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	32.72
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	26.14
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	20.65
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	20.22
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	18.34
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	15.57
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	15.17
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	12.57
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	11.07
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	7.45

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.