Gene detail

Detailed information of OS493_001394-T1 in Lophelia pertusa

Genomic Location: scaffold_3:623743...624204
NR annotation: KAJ7381276.1, Histidine triad nucleotide-binding 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
Q28BZ2	Adenosine 5'-monophosphoramidase HINT3 OS=Xenopus tropicalis OX=8364 GN=hint3 PE=2 SV=1
Q8K3P7	Adenosine 5'-monophosphoramidase HINT3 OS=Rattus norvegicus OX=10116 GN=Hint3 PE=2 SV=2
Q9CPS6	Adenosine 5'-monophosphoramidase HINT3 OS=Mus musculus OX=10090 GN=Hint3 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0010651 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF11969 all species →	DcpS_C	Scavenger mRNA decapping enzyme C-term binding	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR036265 all species →	Homologous_superfamily	HIT-like superfamily	Interproscan
IPR011146 all species →	Domain	HIT-like domain	Interproscan
IPR001310 all species →	Family	Histidine triad (HIT) protein	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12486 all species →	APRATAXIN-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003824 all species →	Molecular Function	catalytic activity	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
K12150	HINT3; adenosine 5'-monophosphoramidase HINT3	EC:3.9.1.-	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_001394-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

17.0Max TPM

4.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	3.17	5.41
polyp at pH7 6	18	18	4.08	6.26
coral polyp · control treatment	16	16	6.89	10.43
coral polyp · oil and dispersant treatment	16	16	6.39	16.98
coral polyp · oil treatment	16	16	6.69	10.35
coral polyp · dispersant treatment	16	16	2.43	5.38
Polyp	10	10	3.06	6.84

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	-	5.41
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.51
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.48
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.37
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.97
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.84
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.19
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.08
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.04
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.01
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.86
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.80
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.74
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.60
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.29
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.02
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.59
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.26
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.26
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.84
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.54
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.31
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.96
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.71
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.69
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.49
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.12
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.82
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.45
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.43
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.22
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.22
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.00
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.91
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.88
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.59
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.43
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.11
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.95
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.68
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.39
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.25
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.13
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.60
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.49
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.05
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.97
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.71
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.54
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.06
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.39
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.51
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.98
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.44
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.68
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.23
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.75
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.37
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.85
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.67
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.38
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.36
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.31
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.29
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.04
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.57
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.74
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.52
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.35
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.61
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.00
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.53
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.41
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.07
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.97
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.84
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.60
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.35
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.26
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.08
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.61
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.48
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.25
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.64
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.38
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.73
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.62
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.47
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.20
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.82
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.68
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.20
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.12
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.11
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.02
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.98
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.59
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.93
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.77
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.27
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	6.84
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	4.73
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	4.20
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	4.20
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	2.49
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	2.40
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	2.36
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	2.27
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	0.58
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	0.52

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.