Gene detail

Detailed information of OS493_015971-T1 in Lophelia pertusa

Genomic Location: scaffold_48:2208223...2213989
NR annotation: KAJ7333878.1, Translation initiation factor [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
Q0IIF2	Translation initiation factor eIF2B subunit alpha OS=Bos taurus OX=9913 GN=EIF2B1 PE=2 SV=1
Q64270	Translation initiation factor eIF2B subunit alpha OS=Rattus norvegicus OX=10116 GN=Eif2b1 PE=2 SV=1
Q99LC8	Translation initiation factor eIF2B subunit alpha OS=Mus musculus OX=10090 GN=Eif2b1 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006506 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01008 all species →	IF-2B	Initiation factor 2 subunit family	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR000649 all species →	Family	Initiation factor 2B-related	Interproscan
IPR042529 all species →	Homologous_superfamily	Initiation factor 2B-like, C-terminal	Interproscan
IPR037171 all species →	Homologous_superfamily	NagB/RpiA transferase-like	Interproscan
IPR042528 all species →	Homologous_superfamily	Translation initiation factor eIF-2B subunit alpha, N-terminal	Interproscan
IPR051501 all species →	Family	Eukaryotic initiation factor 2B subunits alpha/beta/delta	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR45860 all species →	TRANSLATION INITIATION FACTOR EIF-2B SUBUNIT ALPHA	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0044237 all species →	Biological Process	obsolete cellular metabolic process	Interproscan
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:0006413 all species →	Biological Process	translational initiation	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
K03239	EIF2B1; translation initiation factor eIF-2B subunit alpha	-	Translation factors	ko03012	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_015971-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

105TPM > 0

7Conditions

14.9Max TPM

5.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	5.87	11.41
polyp at pH7 6	18	15	6.18	10.38
coral polyp · control treatment	16	16	6.48	14.91
coral polyp · oil and dispersant treatment	16	16	5.13	10.40
coral polyp · oil treatment	16	16	6.00	10.65
coral polyp · dispersant treatment	16	15	2.67	7.76
Polyp	10	9	7.46	12.54

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.41
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.87
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.49
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.42
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.30
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.22
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.91
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.77
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.73
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.61
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.42
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.42
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.01
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.98
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.97
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.34
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.20
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.62
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.38
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.97
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.91
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.54
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.45
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.43
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.38
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.81
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.70
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.37
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.50
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.49
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.26
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.18
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.92
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359524	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
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.91
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.76
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.12
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.32
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.00
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.59
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.90
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.83
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.81
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.81
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.58
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.07
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.92
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.92
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.50
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.67
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.40
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.94
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.11
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.88
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.65
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.63
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.49
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.39
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.71
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.98
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.89
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.85
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.43
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.13
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.96
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.66
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.65
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.52
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.10
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.24
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.67
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.24
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.07
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.02
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.97
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.85
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.68
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.52
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.49
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.88
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.87
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.27
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.76
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.66
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.95
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.88
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.22
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.18
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.16
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.63
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.59
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.08
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.39
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.26
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.12
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.06
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.73
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	12.54
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	12.36
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	9.46
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	9.17
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	8.75
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	8.42
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	6.83
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	3.77
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	3.31
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.