Gene detail

Detailed information of OS493_023960-T1 in Lophelia pertusa

Genomic Location: scaffold_109:167162...170143
NR annotation: KAJ7390572.1, 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)

UniProt accession	Description
D4A7V9	eIF-2-alpha kinase GCN2 OS=Rattus norvegicus OX=10116 GN=Eif2ak4 PE=3 SV=2
Q9QZ05	eIF-2-alpha kinase GCN2 OS=Mus musculus OX=10090 GN=Eif2ak4 PE=1 SV=2
Q9P2K8	eIF-2-alpha kinase GCN2 OS=Homo sapiens OX=9606 GN=EIF2AK4 PE=1 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0002771 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF05773 all species →	RWD	RWD domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR006575 all species →	Domain	RWD domain	Interproscan
IPR040213 all species →	Family	GIR2-like	Interproscan
IPR016135 all species →	Homologous_superfamily	Ubiquitin-conjugating enzyme/RWD-like	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12292 all species →	RWD DOMAIN-CONTAINING PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0002181 all species →	Biological Process	cytoplasmic translation	Interproscan
GO:0005844 all species →	Cellular Component	obsolete polysome	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_023960-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_023960-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

98TPM > 0

7Conditions

10.1Max TPM

3.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	15	2.84	6.46
polyp at pH7 6	18	15	3.28	7.31
coral polyp · control treatment	16	16	4.14	7.41
coral polyp · oil and dispersant treatment	16	16	3.04	7.12
coral polyp · oil treatment	16	15	4.59	10.06
coral polyp · dispersant treatment	16	14	3.38	9.74
Polyp	10	7	1.17	2.91

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	-	6.46
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.21
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.15
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.83
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.77
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.21
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.08
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.94
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.67
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.66
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.60
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.48
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.39
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.35
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.41
SRR11359494	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
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.31
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.13
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.11
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.95
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.86
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.53
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.92
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.78
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.70
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.34
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.23
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.23
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.60
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.72
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.65
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
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.41
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.21
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.35
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.00
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.19
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.66
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.11
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.80
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.78
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.61
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.57
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.71
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.53
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.83
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.82
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.60
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.12
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.74
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.39
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.55
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.15
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.00
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.99
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.75
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.41
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.02
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.81
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.81
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.77
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.74
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.39
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.94
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.06
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.48
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.58
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.52
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.33
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.10
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.86
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.44
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.41
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.31
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.24
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.86
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.63
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.76
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.94
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.74
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.97
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.36
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.31
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.06
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.91
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.64
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.43
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.24
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.75
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.65
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.44
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.38
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.24
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	-	2.91
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	2.20
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	1.82
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	1.57
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	1.34
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	0.95
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	0.90
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.