Gene detail

Detailed information of OS493_024540-T1 in Lophelia pertusa

Genomic Location: scaffold_115:149220...152408
NR annotation: KAJ7390508.1, Armadillo repeat-containing protein 6 [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
Q8BNU0	Armadillo repeat-containing protein 6 OS=Mus musculus OX=10090 GN=Armc6 PE=1 SV=1
Q6NXE6	Armadillo repeat-containing protein 6 OS=Homo sapiens OX=9606 GN=ARMC6 PE=1 SV=2
Q5RD03	Armadillo repeat-containing protein 6 OS=Pongo abelii OX=9601 GN=ARMC6 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0009713 (this species only) · gene tree & orthology

Pfam domain

No Pfam domain signature was recorded for OS493_024540-T1 in Lophelia pertusa.

InterPro

InterPro term	Type	Description	Source
IPR000225 all species →	Repeat	Armadillo	Interproscan
IPR016024 all species →	Homologous_superfamily	Armadillo-type fold	Interproscan
IPR011989 all species →	Homologous_superfamily	Armadillo-like helical	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR22895 all species →	UNCHARACTERIZED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	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
K24166	ARMC6; armadillo repeat-containing protein 6	-	Domain-containing proteins not elsewhere classified	ko04990	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_024540-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

16.6Max TPM

3.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	3.09	4.99
polyp at pH7 6	18	16	2.92	5.30
coral polyp · control treatment	16	16	5.76	16.58
coral polyp · oil and dispersant treatment	16	16	3.54	9.33
coral polyp · oil treatment	16	16	4.86	8.10
coral polyp · dispersant treatment	16	16	2.91	6.45
Polyp	10	9	3.87	12.19

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	-	4.99
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.20
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.19
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.09
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.54
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.54
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.49
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.39
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.34
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.99
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.87
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.63
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.53
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.30
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.16
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.11
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.90
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.38
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.30
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.08
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.36
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.04
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.82
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.72
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.51
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.15
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.10
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.96
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.95
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.85
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.68
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.64
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.32
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.16
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.58
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.26
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.63
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.59
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.49
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.82
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.34
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.26
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.05
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.34
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.08
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.77
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.41
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.27
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.97
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.39
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.33
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.05
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.70
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.18
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.94
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.78
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.40
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.19
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.09
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.76
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.42
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.41
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.35
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.70
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.43
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.94
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.10
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.54
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.33
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.92
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.89
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.50
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.49
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.37
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.26
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.18
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.54
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.39
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.27
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.13
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.09
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.82
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.45
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.99
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.61
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.64
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.46
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.05
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.02
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.91
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.68
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.97
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.96
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.88
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.66
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.57
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.44
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.30
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	12.19
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	8.32
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	4.63
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	2.89
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	2.62
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	2.39
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	2.12
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	1.79
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	1.78
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.