Gene detail

Detailed information of OS493_007929-T1 in Lophelia pertusa

Genomic Location: scaffold_18:1057026...1061849
NR annotation: KAJ7337774.1, hypothetical protein OS493_007929 [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
A0JPN4	Endoribonuclease ZC3H12A OS=Rattus norvegicus OX=10116 GN=Zc3h12a PE=2 SV=1
Q5D1E7	Endoribonuclease ZC3H12A OS=Mus musculus OX=10090 GN=Zc3h12a PE=1 SV=2
Q5D1E8	Endoribonuclease ZC3H12A OS=Homo sapiens OX=9606 GN=ZC3H12A PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001621 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF18039 all species →	UBA_6	UBA-like domain	Domain	Interproscan
PF11977 all species →	RNase_Zc3h12a	Zc3h12a-like Ribonuclease NYN domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR040546 all species →	Domain	Rege-1, UBA-like domain	Interproscan
IPR021869 all species →	Domain	Ribonuclease Zc3h12a-like, NYN domain	Interproscan
IPR000571 all species →	Domain	Zinc finger, CCCH-type	Interproscan
IPR051101 all species →	Family	ZC3H12/N4BP1 Ribonuclease and Regulator	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12876 all species →	N4BP1-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0046872 all species →	Molecular Function	metal ion binding	Interproscan
GO:0003729 all species →	Molecular Function	mRNA binding	Interproscan
GO:0004521 all species →	Molecular Function	RNA endonuclease activity	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0036464 all species →	Cellular Component	cytoplasmic ribonucleoprotein granule	Interproscan
GO:0090502 all species →	Biological Process	obsolete RNA phosphodiester bond hydrolysis, endonucleolytic	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_007929-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_007929-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

484.3Max TPM

122.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	54.31	84.98
polyp at pH7 6	18	18	56.54	103.57
coral polyp · control treatment	16	16	161.19	309.36
coral polyp · oil and dispersant treatment	16	16	155.14	427.16
coral polyp · oil treatment	16	16	107.32	212.95
coral polyp · dispersant treatment	16	16	262.56	484.31
Polyp	10	10	53.85	140.31

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	84.98
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	77.23
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	70.08
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	67.52
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	65.20
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	64.05
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	61.81
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	58.01
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	54.34
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	53.18
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	46.29
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	45.00
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	43.41
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	42.73
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	41.45
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	40.92
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	31.63
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.66
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	103.57
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	102.53
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	64.81
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	64.35
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	57.68
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	55.25
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	53.72
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	53.70
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	53.44
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	52.66
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	52.12
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	52.03
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	50.38
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	48.70
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	47.14
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	46.47
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.83
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.33
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	309.36
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	294.89
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	287.15
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	249.78
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	165.02
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	160.32
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	156.92
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	152.43
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	137.19
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	117.96
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	115.23
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	109.98
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	102.85
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	100.66
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	61.40
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	57.89
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	427.16
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	213.89
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	203.99
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	192.40
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	164.77
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	155.30
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	146.65
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	137.01
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	133.09
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	126.24
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	122.35
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	113.64
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	113.05
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	89.82
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	81.29
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	61.66
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	212.95
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	205.44
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	196.91
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	133.56
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	129.82
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	113.08
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	112.87
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	100.26
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	89.03
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	84.59
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	81.21
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	74.24
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	70.90
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	45.21
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	37.59
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.50
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	484.31
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	426.52
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	366.66
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	333.62
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	313.77
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	309.87
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	307.27
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	284.74
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	251.50
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	234.77
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	233.43
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	231.08
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	192.69
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	173.34
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	33.77
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.69
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	140.31
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	82.35
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	56.33
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	45.24
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	41.32
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	40.49
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	38.94
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	34.00
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	32.65
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	26.86

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.