Gene detail

Detailed information of OS493_023196-T1 in Lophelia pertusa

Genomic Location: scaffold_100:1301458...1307615
NR annotation: KAJ7371853.1, Ubiquitin-like protein 3 [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
Q2TA46	Ubiquitin-like protein 3 OS=Bos taurus OX=9913 GN=UBL3 PE=3 SV=1
O95164	Ubiquitin-like protein 3 OS=Homo sapiens OX=9606 GN=UBL3 PE=1 SV=1
Q9Z2M6	Ubiquitin-like protein 3 OS=Mus musculus OX=10090 GN=Ubl3 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0009206 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF13881 all species →	Rad60-SLD_2	Ubiquitin-2 like Rad60 SUMO-like	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR039540 all species →	Domain	UBL3-like, ubiquitin domain	Interproscan
IPR029071 all species →	Homologous_superfamily	Ubiquitin-like domain superfamily	Interproscan
IPR047977 all species →	Domain	UBL3-like, ubiquitin-like domain, metazoan	Interproscan
IPR040015 all species →	Family	UBL3-like	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR13169 all species →	UBIQUITIN-LIKE PROTEIN 3 HCG-1 PROTEIN	Interproscan

Gene Ontology

No Gene Ontology signature was detected for OS493_023196-T1. This gene does have a gene model — the search simply returned no hit.

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_023196-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_023196-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

319.8Max TPM

107.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	60.38	95.61
polyp at pH7 6	18	18	71.63	98.51
coral polyp · control treatment	16	16	129.56	304.14
coral polyp · oil and dispersant treatment	16	16	202.44	318.05
coral polyp · oil treatment	16	16	111.01	201.89
coral polyp · dispersant treatment	16	16	114.31	319.82
Polyp	10	10	51.89	102.31

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	-	95.61
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	87.95
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	81.89
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	72.93
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	71.28
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	70.79
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	67.15
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	60.39
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	59.95
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	59.06
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	50.37
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	50.18
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	49.90
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	49.87
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	46.89
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	40.60
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	39.85
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.12
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	98.51
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	97.98
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	96.98
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	93.07
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	91.02
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	87.13
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	85.70
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	81.27
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	69.87
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	69.34
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	66.06
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	63.86
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	62.82
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	61.15
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	60.03
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	40.30
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	39.55
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.71
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	304.14
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	191.69
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	167.52
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	155.04
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	133.74
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	129.78
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	127.09
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	125.47
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	123.36
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	123.21
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	104.79
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	104.10
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	96.29
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	87.00
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	63.91
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	35.78
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	318.05
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	271.95
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	268.76
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	268.23
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	236.70
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	235.50
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	234.42
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	228.42
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	205.16
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	200.97
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	160.18
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	152.40
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	143.95
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	139.08
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	113.89
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	61.44
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	201.89
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	185.18
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	167.36
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	159.17
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	148.84
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	124.93
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	117.59
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	116.10
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	113.34
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	95.22
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	84.40
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	67.18
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	64.32
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	63.36
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	55.05
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.15
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	319.82
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	169.16
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	158.84
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	137.29
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	136.51
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	132.91
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	125.11
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	105.80
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	103.52
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	87.18
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	79.44
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	76.10
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	68.69
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	65.70
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	60.88
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.02
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	102.31
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	88.91
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	65.97
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	65.70
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	48.29
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	45.61
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	28.08
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	26.62
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	26.24
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	21.23

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.