Gene detail

Detailed information of OS493_021693-T1 in Lophelia pertusa

Genomic Location: scaffold_84:818196...823018
NR annotation: KAJ7330763.1, hypothetical protein OS493_021693 [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
Q7ZUH1	RNA transcription, translation and transport factor protein OS=Danio rerio OX=7955 GN=rtraf PE=2 SV=1
Q9CQE8	RNA transcription, translation and transport factor protein OS=Mus musculus OX=10090 GN=RTRAF PE=1 SV=1
Q9Y224	RNA transcription, translation and transport factor protein OS=Homo sapiens OX=9606 GN=RTRAF PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007525 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF10036 all species →	RLL	RNA transcription, translation and transport factor protein	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR019265 all species →	Family	RNA transcription, translation and transport factor protein	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR15924 all species →	CLE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003723 all species →	Molecular Function	RNA binding	Interproscan
GO:0006388 all species →	Biological Process	tRNA splicing, via endonucleolytic cleavage and ligation	Interproscan
GO:0072669 all species →	Cellular Component	tRNA-splicing ligase 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
K15433	CGI99, CLE7, RLLM1; RLL motif containing protein 1	-	Chromosome and associated proteins	ko03036	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_021693-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

58.9Max TPM

28.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	24.32	43.08
polyp at pH7 6	18	18	37.05	58.91
coral polyp · control treatment	16	16	27.31	39.35
coral polyp · oil and dispersant treatment	16	16	34.26	52.85
coral polyp · oil treatment	16	16	26.88	43.22
coral polyp · dispersant treatment	16	16	20.39	49.70
Polyp	10	10	25.87	41.55

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	-	43.08
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	40.03
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	35.55
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.23
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.92
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.12
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.58
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.38
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.28
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.22
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.17
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.77
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.23
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.94
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.48
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.40
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.65
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.69
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	58.91
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	58.28
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	57.49
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	56.37
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	43.05
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	40.56
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	40.07
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	39.08
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	35.75
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	34.78
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.76
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.66
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.73
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.45
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.45
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.20
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.07
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.20
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	39.35
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	36.14
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.75
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.93
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	32.13
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.85
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.01
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.91
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.66
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.56
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.18
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.98
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.16
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.39
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.54
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.43
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	52.85
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	49.12
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	45.77
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	43.99
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	41.21
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	36.20
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	36.02
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	35.83
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	33.99
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	33.12
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	30.51
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	28.96
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.90
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.50
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.09
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.15
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	43.22
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	34.61
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	33.43
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.81
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.48
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.93
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.98
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.23
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.21
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.92
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.90
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.89
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.68
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.02
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.50
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.27
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	49.70
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	34.67
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	28.46
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	26.47
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.08
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.74
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.28
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.44
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.83
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.54
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.74
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.55
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.82
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.76
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.68
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.43
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	41.55
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	38.71
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	38.40
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	28.85
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	28.73
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	24.12
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	19.95
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	16.90
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	14.17
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	7.37

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.