Gene detail

Detailed information of OS493_027057-T1 in Lophelia pertusa

Genomic Location: scaffold_144:303711...305287
NR annotation: KAJ7327367.1, Ferredoxin-fold anticodon-binding domain-containing protein 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)

No Swiss-Prot hit above the reporting threshold for this gene.

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003851 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF10354 all species →	BMT5-like	rRNA (uridine-N3-)-methyltransferase BTM5-like	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR019446 all species →	Domain	25S rRNA (uridine-N(3))-methyltransferase BMT5-like	Interproscan
IPR029063 all species →	Homologous_superfamily	S-adenosyl-L-methionine-dependent methyltransferase superfamily	Interproscan

PANTHER

No PANTHER signature was detected for OS493_027057-T1. This gene does have a gene model — the search simply returned no hit.

Gene Ontology

GO term	Category	Description	Source
GO:0070042 all species →	Molecular Function	rRNA (uridine-N3-)-methyltransferase activity	Interproscan
GO:0070475 all species →	Biological Process	rRNA base methylation	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_027057-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_027057-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

87TPM > 0

7Conditions

18.9Max TPM

1.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	12	0.57	1.51
polyp at pH7 6	18	10	0.46	1.84
coral polyp · control treatment	16	16	2.20	15.88
coral polyp · oil and dispersant treatment	16	14	1.84	18.90
coral polyp · oil treatment	16	16	1.36	3.16
coral polyp · dispersant treatment	16	14	1.45	2.93
Polyp	10	5	0.31	1.27

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	-	1.51
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.26
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.09
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.05
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.02
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.95
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.89
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.75
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.68
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.46
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.42
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.23
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.84
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.20
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.98
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.93
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.89
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.64
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.53
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.51
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.41
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.28
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.88
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.58
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.21
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.20
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.98
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.62
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.52
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.18
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.10
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.01
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.90
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.76
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.71
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.65
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.55
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.34
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.90
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.61
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.10
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.04
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.95
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.92
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.69
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.64
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.62
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.60
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.49
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.39
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.34
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.25
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.16
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.57
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.31
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.06
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.02
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.50
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.42
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.29
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.16
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.98
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.98
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.83
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.74
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.33
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.24
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.21
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.93
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.77
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.58
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.18
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.89
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.79
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.43
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.43
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.35
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.14
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.06
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.05
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.96
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.67
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	1.27
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	1.15
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	0.37
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	0.31
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	0.04
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	0.00

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.