Gene detail

Detailed information of OS493_023652-T1 in Lophelia pertusa

Genomic Location: scaffold_105:1147499...1150495
NR annotation: KAJ7378396.1, helicase [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
Q9BYK8	3'-5' exoribonuclease HELZ2 OS=Homo sapiens OX=9606 GN=HELZ2 PE=1 SV=7
E9QAM5	3'-5' exoribonuclease HELZ2 OS=Mus musculus OX=10090 GN=Helz2 PE=1 SV=1
Q9FJR0	Regulator of nonsense transcripts 1 homolog OS=Arabidopsis thaliana OX=3702 GN=UPF1 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000671 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF13087 all species →	AAA_12	AAA domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR027417 all species →	Homologous_superfamily	P-loop containing nucleoside triphosphate hydrolase	Interproscan
IPR050534 all species →	Family	Coronaviruses polyprotein 1ab	Interproscan
IPR047187 all species →	Domain	Upf1-like, C-terminal helicase domain	Interproscan
IPR041679 all species →	Domain	DNA2/NAM7 helicase-like, C-terminal	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR43788 all species →	DNA2/NAM7 HELICASE FAMILY MEMBER	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0043139 all species →	Molecular Function	5'-3' DNA helicase activity	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_023652-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_023652-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

70.6Max TPM

27.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	38.43	70.65
polyp at pH7 6	18	18	26.29	50.27
coral polyp · control treatment	16	16	30.03	54.71
coral polyp · oil and dispersant treatment	16	16	18.29	30.83
coral polyp · oil treatment	16	16	29.74	44.37
coral polyp · dispersant treatment	16	16	21.13	33.59
Polyp	10	10	21.99	36.67

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	70.65
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	70.47
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	61.17
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	61.03
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	52.88
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	44.15
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	40.52
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	35.82
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	35.74
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	35.11
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	34.38
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.08
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.67
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.59
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.40
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.81
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.36
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.96
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	50.27
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	48.70
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	47.84
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	44.31
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	33.70
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.37
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.09
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.59
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.48
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.58
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.11
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.27
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.94
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.93
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.46
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.15
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.73
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.65
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	54.71
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	52.52
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	41.12
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	40.34
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	39.64
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.63
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.46
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.57
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.55
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.76
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.67
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.80
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.23
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.69
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.23
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.61
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	30.83
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	30.10
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.55
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.02
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.73
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.41
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.94
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.18
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.47
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.61
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.77
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.72
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.10
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.60
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.24
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.38
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	44.37
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	41.83
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	41.12
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	39.57
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	35.10
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	34.48
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	32.53
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.83
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.59
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.91
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.97
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.12
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.78
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.98
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.39
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.20
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	33.59
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	32.86
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	31.12
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	30.02
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	29.94
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	29.57
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.54
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.42
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.57
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.47
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.42
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.53
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.24
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.77
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.60
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.40
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	36.67
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	32.51
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	28.68
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	24.76
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	23.91
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	19.68
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	16.03
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	15.97
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	15.30
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	6.38

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.