Gene detail

Detailed information of OS493_017896-T1 in Lophelia pertusa

Genomic Location: scaffold_58:656265...657669
NR annotation: KAJ7372625.1, hypothetical protein OS493_017896 [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
B4F7A1	Complex III assembly factor LYRM7 OS=Rattus norvegicus OX=10116 GN=Lyrm7 PE=3 SV=1
Q9DA03	Complex III assembly factor LYRM7 OS=Mus musculus OX=10090 GN=Lyrm7 PE=3 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0009663 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF05347 all species →	Complex1_LYR	Complex 1 protein (LYR family)	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR045298 all species →	Domain	LYRM7, LYR domain	Interproscan
IPR050435 all species →	Family	Mitochondrial Zinc Maintenance Protein 1 / LYRM7	Interproscan
IPR008011 all species →	Domain	Complex 1 LYR protein domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR46749 all species →	COMPLEX III ASSEMBLY FACTOR LYRM7	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0034551 all species →	Biological Process	mitochondrial respiratory chain complex III assembly	Interproscan
GO:0005759 all species →	Cellular Component	mitochondrial matrix	Interproscan
GO:0044183 all species →	Molecular Function	protein folding chaperone	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
K18170	LYRM7, MZM1; complex III assembly factor LYRM7	-	Mitochondrial biogenesis	ko03029	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_017896-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

109TPM > 0

7Conditions

46.4Max TPM

13.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	14.32	22.47
polyp at pH7 6	18	18	16.03	33.27
coral polyp · control treatment	16	16	15.25	36.09
coral polyp · oil and dispersant treatment	16	15	10.56	15.08
coral polyp · oil treatment	16	16	14.59	20.52
coral polyp · dispersant treatment	16	16	6.23	11.37
Polyp	10	10	20.71	46.45

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.47
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.32
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.50
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.05
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.74
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.21
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.40
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.94
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.81
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.61
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.25
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.14
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.78
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.27
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.63
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.61
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.52
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.48
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	33.27
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.77
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.16
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.04
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.63
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.70
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.64
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.49
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.34
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.16
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.16
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.02
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.33
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.33
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.23
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.36
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.35
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.56
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	36.09
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.81
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.12
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.07
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.68
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.34
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.04
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.71
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.64
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.69
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.05
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.79
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.47
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.47
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.33
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.74
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.08
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.57
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.49
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.59
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.34
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.88
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.86
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.87
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.29
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.04
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.36
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.10
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.45
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.82
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.28
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.52
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.90
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.34
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.26
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.17
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.64
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.59
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.36
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.06
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.95
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.03
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.64
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.63
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.34
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.93
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.04
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.37
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.70
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.67
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.20
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.43
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.25
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.85
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.18
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.97
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.73
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.55
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.41
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.87
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.71
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.72
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.11
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	46.45
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	35.19
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	26.24
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	22.84
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	20.69
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	16.94
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	11.85
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	9.48
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	9.07
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	8.34

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.