Gene detail

Detailed information of OS493_002782-T1 in Lophelia pertusa

Genomic Location: scaffold_6:282709...285491
NR annotation: KAJ7340059.1, Eukaryotic translation initiation factor 1b [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
P51971	Eukaryotic translation initiation factor 1 OS=Gallus gallus OX=9031 GN=EIF1 PE=3 SV=2
Q5E938	Eukaryotic translation initiation factor 1 OS=Bos taurus OX=9913 GN=EIF1 PE=3 SV=1
P41567	Eukaryotic translation initiation factor 1 OS=Homo sapiens OX=9606 GN=EIF1 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0008684 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01253 all species →	SUI1	Translation initiation factor SUI1	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR005874 all species →	Family	Eukaryotic translation initiation factor SUI1	Interproscan
IPR001950 all species →	Domain	SUI1 domain	Interproscan
IPR036877 all species →	Homologous_superfamily	SUI1 domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10388 all species →	EUKARYOTIC TRANSLATION INITIATION FACTOR SUI1	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003743 all species →	Molecular Function	translation initiation factor activity	Interproscan
GO:0006413 all species →	Biological Process	translational initiation	Interproscan
GO:0003723 all species →	Molecular Function	RNA binding	Interproscan
GO:0016282 all species →	Cellular Component	eukaryotic 43S preinitiation complex	Interproscan
GO:0043024 all species →	Molecular Function	ribosomal small subunit 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
K03113	EIF1, SUI1; translation initiation factor 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_002782-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

1,817.0Max TPM

698.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	392.52	750.43
polyp at pH7 6	18	18	581.36	802.44
coral polyp · control treatment	16	16	681.58	1,127.25
coral polyp · oil and dispersant treatment	16	16	1,220.57	1,817.03
coral polyp · oil treatment	16	16	598.31	876.53
coral polyp · dispersant treatment	16	16	826.20	1,733.68
Polyp	10	10	605.29	1,262.45

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	-	750.43
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	742.17
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	451.27
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	403.75
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	400.32
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	390.66
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	382.12
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	373.45
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	372.02
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	371.70
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	371.57
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	356.36
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	293.19
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	291.30
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	288.24
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	283.27
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	273.80
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	269.70
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	802.44
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	679.36
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	672.77
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	664.48
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	645.63
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	635.65
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	635.32
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	626.64
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	594.83
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	594.11
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	590.50
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	565.65
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	551.42
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	548.83
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	453.18
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	447.04
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	378.36
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	378.28
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1,127.25
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	928.72
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	852.97
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	794.96
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	792.29
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	752.45
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	708.81
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	685.36
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	655.27
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	574.94
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	552.69
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	546.64
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	519.00
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	493.90
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	490.81
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	429.24
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,817.03
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,722.02
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,668.50
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,648.08
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,520.57
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,485.03
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,361.18
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,136.43
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,108.18
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	997.45
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	986.86
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	893.88
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	852.17
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	845.24
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	768.95
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	717.59
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	876.53
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	834.20
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	772.53
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	708.61
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	703.84
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	629.10
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	618.60
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	578.81
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	563.53
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	560.59
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	523.64
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	493.10
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	472.28
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	463.03
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	398.76
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	375.79
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,733.68
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,347.39
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,221.28
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,176.88
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	982.26
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	798.78
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	686.73
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	683.35
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	659.95
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	650.90
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	647.71
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	605.75
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	604.92
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	587.37
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	556.97
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	275.30
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	1,262.45
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	1,147.24
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	842.27
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	768.72
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	534.88
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	368.75
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	344.81
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	344.21
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	229.31
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	210.29

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.