Gene detail

Detailed information of OS493_033987-T1 in Lophelia pertusa

Genomic Location: scaffold_279:13468...13941
NR annotation: KAJ7376531.1, translation initiation factor eIF1 [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)

No Swiss-Prot hit above the reporting threshold for this gene.

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0010972 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01253 all species →	SUI1	Translation initiation factor SUI1	Domain	Interproscan
PF05046 all species →	Img2	Mitochondrial large subunit ribosomal protein (Img2)	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR001950 all species →	Domain	SUI1 domain	Interproscan
IPR007740 all species →	Family	Large ribosomal subunit protein mL49	Interproscan
IPR036877 all species →	Homologous_superfamily	SUI1 domain superfamily	Interproscan

PANTHER

No PANTHER signature was recorded for OS493_033987-T1 in Lophelia pertusa.

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:0003735 all species →	Molecular Function	structural constituent of ribosome	Interproscan
GO:0005840 all species →	Cellular Component	ribosome	Interproscan
GO:0006412 all species →	Biological Process	translation	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_033987-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_033987-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

107TPM > 0

7Conditions

19.7Max TPM

4.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	3.72	9.01
polyp at pH7 6	18	18	4.37	7.22
coral polyp · control treatment	16	16	6.31	11.00
coral polyp · oil and dispersant treatment	16	16	4.43	8.54
coral polyp · oil treatment	16	16	5.92	19.71
coral polyp · dispersant treatment	16	14	2.74	8.53
Polyp	10	9	1.67	3.86

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.01
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.55
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.13
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.01
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.79
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.92
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.55
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.47
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.25
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.15
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.94
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.82
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.77
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.57
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.56
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.44
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.04
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.03
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.22
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.02
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.93
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.85
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.70
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.29
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.24
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.61
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.49
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.31
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.19
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.08
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.06
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.03
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.74
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.38
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.11
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.40
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.00
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.23
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.28
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.98
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.49
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.31
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.11
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.07
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.37
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.12
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.70
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.53
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.24
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.74
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.17
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.69
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.54
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.93
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.15
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.68
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.66
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.67
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.50
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.48
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.33
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.30
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.79
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.73
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.54
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.64
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.60
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.35
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.71
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.70
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.36
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.92
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.84
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.56
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.27
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.06
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.81
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.53
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.34
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.05
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.82
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.99
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.03
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.66
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.53
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.29
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.69
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.34
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.25
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.07
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.85
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.44
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.28
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.78
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.73
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.29
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.21
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.13
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	3.86
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	2.69
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	2.39
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	1.63
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	1.45
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	1.37
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	1.37
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	1.14
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	0.82
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.