Gene detail

Detailed information of OS493_023647-T1 in Lophelia pertusa

Genomic Location: scaffold_105:1107595...1115100
NR annotation: KAJ7378392.1, 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
Q9HEH1	Regulator of nonsense transcripts 1 homolog OS=Neurospora crassa (strain ATCC 24698 / 74-OR23-1A / CBS 708.71 / DSM 1257 / FGSC 987) OX=367110 GN=2E4.130 PE=3 SV=1

Gene family

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

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF13086 all species →	AAA_11	AAA domain	Domain	Interproscan
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
IPR041677 all species →	Domain	DNA2/NAM7 helicase, helicase domain	Interproscan
IPR041679 all species →	Domain	DNA2/NAM7 helicase-like, C-terminal	Interproscan
IPR047187 all species →	Domain	Upf1-like, C-terminal helicase domain	Interproscan
IPR050534 all species →	Family	Coronaviruses polyprotein 1ab	Interproscan

PANTHER

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

Gene Ontology

GO term	Category	Description	Source
GO:0004386 all species →	Molecular Function	helicase activity	Interproscan
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_023647-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_023647-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

234.1Max TPM

59.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	60.49	107.04
polyp at pH7 6	18	18	40.45	82.17
coral polyp · control treatment	16	16	66.26	129.08
coral polyp · oil and dispersant treatment	16	16	50.74	120.52
coral polyp · oil treatment	16	16	70.87	119.11
coral polyp · dispersant treatment	16	16	40.49	79.05
Polyp	10	10	110.41	234.12

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	107.04
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	104.34
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	101.05
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	96.04
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	88.52
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	87.89
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	80.42
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	78.12
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	59.13
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	53.92
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	49.62
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	46.58
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.33
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.29
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.70
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.80
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.80
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.21
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	82.17
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	78.89
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	55.28
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	53.11
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	45.12
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	43.81
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	43.26
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	42.66
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	37.40
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	35.80
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	34.36
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.53
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.68
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.81
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.59
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.17
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.66
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.77
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	129.08
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	106.44
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	99.43
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	98.45
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	90.38
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	85.56
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	79.26
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	55.42
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	50.23
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	49.51
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	44.90
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	41.24
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	39.66
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.15
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.25
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.27
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	120.52
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	86.27
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	72.01
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	69.36
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	46.87
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	45.39
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	43.88
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	43.86
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	42.83
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	42.40
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	41.95
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	38.09
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	34.43
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	30.76
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	30.26
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.96
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	119.11
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	113.35
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	107.58
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	98.75
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	88.34
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	88.00
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	61.63
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	60.04
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	58.05
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	52.89
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	52.85
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	52.30
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	50.36
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	49.98
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	49.76
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.97
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	79.05
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	69.95
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	57.32
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	55.59
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	51.96
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	48.24
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	43.67
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	42.04
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	32.16
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	30.13
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	29.45
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	29.25
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.62
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.38
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.79
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.20
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	234.12
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	157.05
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	150.20
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	140.55
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	94.00
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	91.09
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	68.58
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	60.64
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	59.18
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	48.71

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.