Gene detail

Detailed information of OS493_019745-T1 in Lophelia pertusa

Genomic Location: scaffold_70:660908...662706
NR annotation: KAJ7372301.1, Ubiquitin- modifier 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
Q148F0	Ubiquitin-related modifier 1 OS=Bos taurus OX=9913 GN=URM1 PE=3 SV=1
A9YUB5	Ubiquitin-related modifier 1 OS=Capra hircus OX=9925 GN=URM1 PE=3 SV=1
Q9BTM9	Ubiquitin-related modifier 1 OS=Homo sapiens OX=9606 GN=URM1 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0008389 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF09138 all species →	Urm1	Urm1 (Ubiquitin related modifier)	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR015221 all species →	Family	Ubiquitin-related modifier 1	Interproscan
IPR012675 all species →	Homologous_superfamily	Beta-grasp domain superfamily	Interproscan
IPR016155 all species →	Homologous_superfamily	Molybdopterin synthase/thiamin biosynthesis sulphur carrier, beta-grasp	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR14986 all species →	RURM1 PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0031386 all species →	Molecular Function	protein tag activity	Interproscan
GO:0032447 all species →	Biological Process	protein urmylation	Interproscan
GO:0034227 all species →	Biological Process	tRNA thio-modification	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
K12161	URM1; ubiquitin related modifier 1	-	Ubiquitin system	ko04121	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_019745-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

37.6Max TPM

11.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	10.63	18.56
polyp at pH7 6	18	18	11.95	23.82
coral polyp · control treatment	16	16	12.45	23.44
coral polyp · oil and dispersant treatment	16	16	7.15	24.26
coral polyp · oil treatment	16	16	11.95	18.56
coral polyp · dispersant treatment	16	16	7.76	13.95
Polyp	10	10	18.20	37.60

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.56
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.95
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.36
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.76
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.79
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.72
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.26
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.03
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.64
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.20
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.08
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.03
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.74
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.56
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.32
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.97
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.75
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.59
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.82
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.04
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.37
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.71
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.62
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.90
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.59
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.96
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.87
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.55
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.94
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.85
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.72
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.26
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.09
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.74
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.50
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.48
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.44
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.88
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.95
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.47
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.11
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.24
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.52
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.32
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.16
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.54
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.75
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.70
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.19
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.02
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.34
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.53
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.26
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.05
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.93
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.23
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.95
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.85
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.41
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.37
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.59
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.96
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.37
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.15
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.15
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.85
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.15
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.06
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.56
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.82
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.04
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.90
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.08
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.02
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.03
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.74
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.66
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.25
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.65
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.87
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.99
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.05
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.76
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.78
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.95
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.81
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.81
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.33
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.12
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.84
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.50
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.49
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.48
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.44
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.19
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.10
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.58
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.25
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.92
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.37
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	37.60
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	26.26
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	23.56
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	21.61
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	18.54
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	14.50
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	13.50
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	10.23
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	10.22
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	5.93

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.