Gene detail

Detailed information of OS493_023956-T1 in Lophelia pertusa

Genomic Location: scaffold_109:147241...148776
NR annotation: KAJ7390568.1, Eukaryotic translation initiation factor 2 alpha kinase 4 [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)	OG0002825 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF12745 all species →	HGTP_anticodon2	Anticodon binding domain of tRNAs	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR036621 all species →	Homologous_superfamily	Anticodon-binding domain superfamily	Interproscan
IPR024435 all species →	Domain	Histidyl tRNA synthetase-related domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11476 all species →	HISTIDYL-TRNA SYNTHETASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003723 all species →	Molecular Function	RNA binding	Interproscan
GO:0004821 all species →	Molecular Function	histidine-tRNA ligase activity	Interproscan
GO:0005739 all species →	Cellular Component	mitochondrion	Interproscan
GO:0005829 all species →	Cellular Component	cytosol	Interproscan
GO:0006427 all species →	Biological Process	histidyl-tRNA aminoacylation	Interproscan
GO:0032543 all species →	Biological Process	mitochondrial translation	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_023956-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_023956-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

62TPM > 0

7Conditions

7.7Max TPM

1.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	16	3.39	6.59
polyp at pH7 6	18	15	3.36	7.71
coral polyp · control treatment	16	5	0.20	1.58
coral polyp · oil and dispersant treatment	16	4	0.16	1.08
coral polyp · oil treatment	16	9	0.38	1.12
coral polyp · dispersant treatment	16	6	0.19	1.37
Polyp	10	7	1.41	3.87

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.59
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.50
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.75
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.64
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.54
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.17
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.58
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.53
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.52
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.34
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.20
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.00
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.72
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.61
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.24
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.14
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.71
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.42
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.99
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.45
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.32
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.21
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.53
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.44
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.37
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.17
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.93
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.76
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.63
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.47
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.13
SRR11359502	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
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.58
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.85
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.45
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.22
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.09
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.08
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.70
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.44
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.30
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705993	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
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.12
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.05
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.01
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.88
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.59
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.52
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.43
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.29
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.27
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.37
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.79
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.49
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.16
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.10
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.06
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705968	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
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	3.87
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	3.67
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	2.48
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	1.52
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	1.14
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	0.75
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	0.70
SRR7746666	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.