Gene detail

Detailed information of OS493_036928-T1 in Lophelia pertusa

Genomic Location: scaffold_391:159566...188934
NR annotation: KAJ7388561.1, Eukaryotic translation initiation factor 2 subunit 1 [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
Q6GL89	Eukaryotic translation initiation factor 2 subunit 1 OS=Xenopus tropicalis OX=8364 GN=eif2s1 PE=2 SV=1
P05198	Eukaryotic translation initiation factor 2 subunit 1 OS=Homo sapiens OX=9606 GN=EIF2S1 PE=1 SV=3
Q7ZTK4	Eukaryotic translation initiation factor 2 subunit 1 OS=Xenopus laevis OX=8355 GN=eif2s1 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007009 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00575 all species →	S1	S1 RNA binding domain	Domain	Interproscan
PF07541 all species →	EIF_2_alpha	Eukaryotic translation initiation factor 2 alpha subunit	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR044126 all species →	Domain	IF2a, S1-like domain	Interproscan
IPR024054 all species →	Homologous_superfamily	Translation initiation factor 2, alpha subunit, middle domain superfamily	Interproscan
IPR003029 all species →	Domain	S1 domain	Interproscan
IPR012340 all species →	Homologous_superfamily	Nucleic acid-binding, OB-fold	Interproscan
IPR024055 all species →	Homologous_superfamily	Translation initiation factor 2, alpha subunit, C-terminal	Interproscan
IPR011488 all species →	Family	Translation initiation factor 2, alpha subunit	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10602 all species →	EUKARYOTIC TRANSLATION INITIATION FACTOR 2 SUBUNIT 1	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003723 all species →	Molecular Function	RNA binding	Interproscan
GO:0003676 all species →	Molecular Function	nucleic acid binding	Interproscan
GO:0003743 all species →	Molecular Function	translation initiation factor activity	Interproscan
GO:0005850 all species →	Cellular Component	eukaryotic translation initiation factor 2 complex	Interproscan
GO:0006413 all species →	Biological Process	translational initiation	Interproscan
GO:0033290 all species →	Cellular Component	eukaryotic 48S preinitiation complex	Interproscan
GO:0043022 all species →	Molecular Function	ribosome 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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K03237	EIF2S1; translation initiation factor 2 subunit 1	-	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_036928-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

63.5Max TPM

23.9Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	18.56	29.80
polyp at pH7 6	18	18	23.09	35.43
coral polyp · control treatment	16	16	27.14	52.69
coral polyp · oil and dispersant treatment	16	16	34.40	54.73
coral polyp · oil treatment	16	16	23.20	35.30
coral polyp · dispersant treatment	16	16	23.85	63.52
Polyp	10	10	14.17	29.24

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.80
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.19
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.05
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.84
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.79
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.51
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.21
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.27
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.91
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.55
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.10
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.75
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.01
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.66
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.28
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.02
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.22
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.93
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	35.43
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.49
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.61
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.41
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.62
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.77
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.50
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.78
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.72
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.61
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.90
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.47
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.64
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.89
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.12
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.12
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.53
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.06
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	52.69
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	40.86
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.29
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.20
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	32.19
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.47
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.91
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.44
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.49
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.40
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.76
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.58
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.65
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.89
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.71
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.68
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	54.73
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	52.42
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	49.36
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	46.86
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	39.92
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	38.00
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	34.26
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	33.91
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	32.92
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	32.72
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.89
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.35
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.83
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.51
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.14
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.50
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	35.30
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	34.38
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	33.42
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	32.56
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.88
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.23
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.78
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.85
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.37
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.31
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.26
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.16
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.01
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.24
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.91
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.52
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	63.52
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	35.24
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	33.23
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	28.51
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	26.30
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.23
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.94
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.73
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.80
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.13
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.97
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.70
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.55
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.45
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.38
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.88
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	29.24
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	16.82
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	16.43
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	16.13
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	13.24
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	11.74
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	11.43
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	10.59
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	8.28
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	7.79

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.