Gene detail

Detailed information of OS493_033409-T1 in Lophelia pertusa

Genomic Location: scaffold_264:141679...228895
NR annotation: KAJ7322015.1, Eukaryotic translation initiation factor 3 subunit J, partial [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
A7RSH7	Eukaryotic translation initiation factor 3 subunit J OS=Nematostella vectensis OX=45351 GN=v1g240395 PE=3 SV=1
Q7SXU0	Eukaryotic translation initiation factor 3 subunit J-A OS=Danio rerio OX=7955 GN=eif3ja PE=1 SV=1
Q5ZKA4	Eukaryotic translation initiation factor 3 subunit J OS=Gallus gallus OX=9031 GN=EIF3J PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006678 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF08597 all species →	eIF3_subunit	Translation initiation factor eIF3 subunit	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR013906 all species →	Family	Eukaryotic translation initiation factor 3 subunit J	Interproscan
IPR023194 all species →	Homologous_superfamily	Eukaryotic translation initiation factor 3-like domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR21681 all species →	EUKARYOTIC TRANSLATION INITIATION FACTOR 3 SUBUNIT J	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003743 all species →	Molecular Function	translation initiation factor activity	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0005852 all species →	Cellular Component	eukaryotic translation initiation factor 3 complex	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
K03245	EIF3J; translation initiation factor 3 subunit J	-	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_033409-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

83.5Max TPM

35.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	26.86	57.80
polyp at pH7 6	18	18	32.78	54.00
coral polyp · control treatment	16	16	40.68	57.21
coral polyp · oil and dispersant treatment	16	16	35.69	57.86
coral polyp · oil treatment	16	16	36.72	49.17
coral polyp · dispersant treatment	16	16	34.09	53.07
Polyp	10	10	42.23	83.46

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	-	57.80
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	56.12
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	31.09
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.52
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.07
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.47
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.30
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.21
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.20
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.56
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.34
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.01
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.88
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.62
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.01
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.26
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.77
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.19
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	54.00
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	51.59
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	47.99
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	41.84
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	37.89
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	37.70
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	34.63
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	34.46
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.77
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.16
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.05
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.92
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.90
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.34
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.91
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.01
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.87
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.02
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	57.21
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	50.90
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	47.77
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	45.90
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	45.83
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	45.22
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	43.29
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	42.59
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	42.28
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	39.27
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	38.67
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	37.37
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.28
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.30
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.47
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.49
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	57.86
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	52.24
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	48.00
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	42.34
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	41.95
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	38.78
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	38.06
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	32.93
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	32.84
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	31.55
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	31.47
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	29.93
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	28.64
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.91
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.97
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.62
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	49.17
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	45.26
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	44.08
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	42.63
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	39.92
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	38.91
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	38.85
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	38.27
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	38.21
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	37.26
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	36.50
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	32.79
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.10
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.98
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.76
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.87
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	53.07
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	48.55
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	45.23
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	40.11
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	39.33
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	38.66
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	37.48
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	34.31
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	32.21
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	32.21
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	31.95
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	31.94
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	29.65
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	29.39
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.51
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.88
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	83.46
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	48.61
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	44.33
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	43.10
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	42.25
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	38.73
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	34.29
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	32.29
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	31.31
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	23.92

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.