Gene detail

Detailed information of OS493_039058-T1 in Lophelia pertusa

Genomic Location: scaffold_889:21924...24708
NR annotation: KAJ7388237.1, hypothetical protein OS493_039058, partial [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
Q8BTT6	U3 small nucleolar RNA-associated protein 25 homolog OS=Mus musculus OX=10090 GN=Utp25 PE=1 SV=2
Q68CQ4	U3 small nucleolar RNA-associated protein 25 homolog OS=Homo sapiens OX=9606 GN=UTP25 PE=1 SV=2
Q5M9G7	U3 small nucleolar RNA-associated protein 25 homolog OS=Rattus norvegicus OX=10116 GN=Utp25 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0002910 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF06862 all species →	UTP25	Utp25, U3 small nucleolar RNA-associated SSU processome protein 25	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR010678 all species →	Family	U3 small nucleolar RNA-associated protein 25	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12933 all species →	ORF PROTEIN-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000462 all species →	Biological Process	maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	Interproscan
GO:0005730 all species →	Cellular Component	nucleolus	Interproscan
GO:0006364 all species →	Biological Process	rRNA processing	Interproscan
GO:0019843 all species →	Molecular Function	rRNA binding	Interproscan
GO:0032040 all species →	Cellular Component	small-subunit processome	Interproscan
GO:0034511 all species →	Molecular Function	U3 snoRNA 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

No KEGG orthology assignment for OS493_039058-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_039058-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

34.1Max TPM

13.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	15.28	21.18
polyp at pH7 6	18	18	16.62	27.01
coral polyp · control treatment	16	16	14.83	29.63
coral polyp · oil and dispersant treatment	16	16	11.17	19.08
coral polyp · oil treatment	16	16	15.17	34.13
coral polyp · dispersant treatment	16	16	7.85	24.68
Polyp	10	10	11.66	21.94

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	-	21.18
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.18
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.94
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.39
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.06
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.62
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.03
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.73
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.60
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.35
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.27
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.28
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.16
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.61
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.61
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.39
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.10
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.45
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.01
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.81
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.70
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.28
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.69
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.05
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.18
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.86
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.73
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.73
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.96
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.76
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.54
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.45
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.92
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.19
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.88
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.46
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.63
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.43
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.99
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.71
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.24
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.08
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.58
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.95
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.19
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.87
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.80
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.78
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.77
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.38
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.19
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.76
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.08
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.14
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.19
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.96
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.88
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.75
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.00
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.45
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.97
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.04
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.42
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.17
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.68
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.00
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.91
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.14
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	34.13
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.56
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.96
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.45
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.42
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.79
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.16
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.58
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.53
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.04
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.23
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.54
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.35
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.79
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.26
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.99
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.68
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.83
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.02
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.17
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.97
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.94
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.39
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.96
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.83
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.78
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.67
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.48
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.33
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.05
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.42
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.07
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	21.94
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	15.99
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	15.87
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	15.66
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	14.78
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	13.20
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	7.98
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	4.93
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	3.20
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	3.05

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.