Gene detail

Detailed information of OS493_001311-T1 in Lophelia pertusa

Genomic Location: scaffold_2:8301888...8306764
NR annotation: KAJ7387955.1, HBS1-like protein [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
Q69ZS7	HBS1-like protein OS=Mus musculus OX=10090 GN=Hbs1l PE=1 SV=2
Q6AXM7	HBS1-like protein OS=Rattus norvegicus OX=10116 GN=Hbs1l PE=1 SV=1
Q9Y450	HBS1-like protein OS=Homo sapiens OX=9606 GN=HBS1L PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000867 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF03143 all species →	GTP_EFTU_D3	Elongation factor Tu C-terminal domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR004160 all species →	Domain	Translation elongation factor EFTu/EF1A, C-terminal	Interproscan
IPR050100 all species →	Family	Translation factor GTPase superfamily members	Interproscan
IPR009001 all species →	Homologous_superfamily	Translation elongation factor EF1A/initiation factor IF2gamma, C-terminal	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR23115 all species →	TRANSLATION FACTOR	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003924 all species →	Molecular Function	GTPase activity	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_001311-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_001311-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

340.1Max TPM

68.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	56.42	84.53
polyp at pH7 6	18	18	66.52	98.79
coral polyp · control treatment	16	16	55.66	107.02
coral polyp · oil and dispersant treatment	16	16	51.72	99.47
coral polyp · oil treatment	16	16	70.71	133.75
coral polyp · dispersant treatment	16	16	59.32	235.54
Polyp	10	10	147.75	340.07

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	84.53
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	72.06
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	70.90
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	70.70
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	63.24
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	59.09
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	58.73
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	56.07
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	55.47
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	54.66
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	53.13
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	52.17
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	50.26
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	48.89
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	46.65
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	42.85
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	39.60
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	36.53
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	98.79
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	96.83
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	92.69
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	92.00
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	85.60
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	81.41
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	76.94
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	73.19
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	64.45
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	59.69
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	59.50
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	59.20
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	54.00
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	53.61
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	42.13
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	39.37
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	34.20
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	33.77
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	107.02
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	74.15
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	68.86
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	64.96
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	63.00
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	59.57
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	56.15
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	55.96
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	50.99
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	47.82
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	47.76
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	47.53
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	44.28
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	38.61
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	32.26
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.56
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	99.47
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	68.49
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	67.59
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	62.50
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	57.59
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	56.34
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	49.11
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	48.52
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	47.06
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	46.58
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	45.56
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	44.07
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	40.02
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	34.43
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	34.18
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.07
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	133.75
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	114.47
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	97.06
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	81.69
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	75.49
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	72.97
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	69.47
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	69.31
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	65.78
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	58.83
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	57.75
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	53.46
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	51.50
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	44.94
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	43.75
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	41.17
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	235.54
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	206.62
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	66.99
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	46.39
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	43.50
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	43.18
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	42.08
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	34.98
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	33.92
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	33.60
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	33.44
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	32.96
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	29.81
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.80
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.18
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.07
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	340.07
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	191.12
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	186.79
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	152.41
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	141.43
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	128.81
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	97.82
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	95.17
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	90.88
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	52.95

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.