Gene detail

Detailed information of OS493_004872-T1 in Lophelia pertusa

Genomic Location: scaffold_10:464242...466361
NR annotation: KAJ7374534.1, tRNA-specific adenosine deaminase 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
Q5ZI16	tRNA-specific adenosine deaminase 1 OS=Gallus gallus OX=9031 GN=ADAT1 PE=2 SV=1
Q28FE8	tRNA-specific adenosine deaminase 1 OS=Xenopus tropicalis OX=8364 GN=adat1 PE=2 SV=1
Q9JHI2	tRNA-specific adenosine deaminase 1 OS=Mus musculus OX=10090 GN=Adat1 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0005152 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF02137 all species →	A_deamin	Adenosine-deaminase (editase) domain	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR002466 all species →	Domain	Adenosine deaminase/editase	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR46516 all species →	TRNA-SPECIFIC ADENOSINE DEAMINASE 1	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0008033 all species →	Biological Process	tRNA processing	Interproscan
GO:0008251 all species →	Molecular Function	tRNA-specific adenosine deaminase activity	Interproscan
GO:0003723 all species →	Molecular Function	RNA binding	Interproscan
GO:0004000 all species →	Molecular Function	adenosine deaminase activity	Interproscan
GO:0006396 all species →	Biological Process	RNA processing	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
K15440	TAD1, ADAT1; tRNA-specific adenosine deaminase 1	EC:3.5.4.34	Transfer RNA biogenesis	ko03016	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_004872-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

462.8Max TPM

84.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	87.97	158.34
polyp at pH7 6	18	18	96.73	184.09
coral polyp · control treatment	16	16	42.64	86.26
coral polyp · oil and dispersant treatment	16	16	63.46	117.74
coral polyp · oil treatment	16	16	51.97	152.99
coral polyp · dispersant treatment	16	16	59.31	168.63
Polyp	10	10	244.55	462.78

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	158.34
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	157.75
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	152.72
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	143.93
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	103.98
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	102.86
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	84.52
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	81.44
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	80.69
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	76.82
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	60.46
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	58.46
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	56.76
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	56.68
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	54.55
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	51.72
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	51.21
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	50.60
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	184.09
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	179.40
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	141.25
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	138.81
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	125.69
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	121.15
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	97.37
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	95.46
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	83.56
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	83.40
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	73.92
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	72.89
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	72.58
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	69.83
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	66.93
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	66.46
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	34.75
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	33.68
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	86.26
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	57.22
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	52.83
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	52.13
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	46.65
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	46.08
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	45.52
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	40.30
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	39.72
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	38.37
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.74
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	32.81
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.01
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.18
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.26
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.17
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	117.74
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	112.31
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	88.08
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	76.45
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	72.58
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	71.38
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	66.38
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	62.88
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	58.15
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	49.69
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	48.66
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	42.23
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	40.73
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	38.27
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	37.62
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	32.23
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	152.99
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	77.91
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	72.59
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	61.05
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	52.46
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	51.35
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	49.61
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	49.33
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	46.17
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	43.95
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	32.96
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.47
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.02
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.52
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.67
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.43
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	168.63
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	141.16
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	60.86
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	60.79
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	60.66
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	57.27
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	56.82
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	51.95
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	42.97
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	41.15
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	40.03
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	39.59
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	33.11
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	31.61
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	31.49
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	30.87
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	462.78
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	342.29
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	305.12
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	287.46
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	265.23
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	237.88
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	158.21
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	144.10
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	128.29
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	114.19

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.