Gene detail

Detailed information of OS493_008122-T1 in Lophelia pertusa

Genomic Location: scaffold_18:3919690...3923825
NR annotation: KAJ7337955.1, Translation initiation factor eIF-2B subunit epsilon [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
Q8CHW4	Translation initiation factor eIF2B subunit epsilon OS=Mus musculus OX=10090 GN=Eif2b5 PE=1 SV=1
Q64350	Translation initiation factor eIF2B subunit epsilon OS=Rattus norvegicus OX=10116 GN=Eif2b5 PE=1 SV=2
P47823	Translation initiation factor eIF2B subunit epsilon OS=Oryctolagus cuniculus OX=9986 GN=EIF2B5 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004723 (this species only)

Pfam domain

No Pfam domain signature was detected for OS493_008122-T1. This gene does have a gene model — the search simply returned no hit.

InterPro

InterPro term	Type	Description	Source
IPR016024 all species →	Homologous_superfamily	Armadillo-type fold	Interproscan
IPR051956 all species →	Family	eIF2B Complex Subunit Epsilon	Interproscan
IPR044123 all species →	Domain	Translation initiation factor eIF-2B subunit epsilon, W2 domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR45887 all species →	TRANSLATION INITIATION FACTOR EIF-2B SUBUNIT EPSILON	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003743 all species →	Molecular Function	translation initiation factor activity	Interproscan
GO:0005085 all species →	Molecular Function	guanyl-nucleotide exchange factor activity	Interproscan
GO:0005851 all species →	Cellular Component	eukaryotic translation initiation factor 2B complex	Interproscan
GO:0031369 all species →	Molecular Function	translation initiation factor binding	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_008122-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_008122-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

70.0Max TPM

26.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	28.69	45.48
polyp at pH7 6	18	18	35.67	69.97
coral polyp · control treatment	16	16	21.74	32.09
coral polyp · oil and dispersant treatment	16	16	20.52	34.62
coral polyp · oil treatment	16	16	20.63	34.03
coral polyp · dispersant treatment	16	16	19.48	48.27
Polyp	10	10	39.22	59.29

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	45.48
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	42.40
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	40.17
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	39.29
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	34.56
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	33.63
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	33.00
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.26
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.87
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.84
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.36
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.91
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.16
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.83
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.42
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.69
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.02
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.46
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	69.97
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	64.27
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	57.28
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	52.19
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	38.43
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	38.12
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	36.94
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	33.78
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	33.32
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	31.67
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	31.38
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.14
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.61
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.83
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.90
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.86
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.20
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.26
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	32.09
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.69
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.97
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.09
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.53
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.03
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.93
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.35
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.57
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.83
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.65
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.12
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.63
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.02
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.51
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.77
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	34.62
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.96
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.14
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.13
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.33
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.97
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.79
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.98
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.81
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.79
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.36
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.50
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.34
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.51
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.62
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.50
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	34.03
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.35
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.11
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.25
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.65
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.52
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.41
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.92
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.48
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.79
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.74
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.67
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.14
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.40
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.15
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.54
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	48.27
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	30.42
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.05
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.75
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.71
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.00
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.37
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.16
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.51
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.29
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.02
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.97
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.33
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.26
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.70
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.94
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	59.29
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	58.60
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	56.39
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	52.52
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	43.82
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	41.25
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	32.69
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	21.81
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	14.61
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	11.19

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.