Gene detail

Detailed information of OS493_000086-T1 in Lophelia pertusa

Genomic Location: scaffold_1:1016295...1020368
NR annotation: KAJ7394284.1, hypothetical protein OS493_000086 [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
Q5D1E8	Endoribonuclease ZC3H12A OS=Homo sapiens OX=9606 GN=ZC3H12A PE=1 SV=1
Q5D1E7	Endoribonuclease ZC3H12A OS=Mus musculus OX=10090 GN=Zc3h12a PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001622 (this species only) · gene tree & orthology

Pfam domain

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

InterPro

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

PANTHER

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

Gene Ontology

GO term	Category	Description	Source
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
GO:0046872 all species →	Molecular Function	metal ion 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

No KEGG orthology assignment for OS493_000086-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_000086-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

65.9Max TPM

18.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	11.40	19.45
polyp at pH7 6	18	18	13.23	22.23
coral polyp · control treatment	16	16	20.87	32.79
coral polyp · oil and dispersant treatment	16	16	21.39	42.37
coral polyp · oil treatment	16	16	14.04	36.24
coral polyp · dispersant treatment	16	16	37.37	65.86
Polyp	10	10	4.76	8.02

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.45
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.00
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.60
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.09
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.57
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.45
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.80
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.14
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.12
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.58
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.50
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.46
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.43
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.11
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.90
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.58
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.86
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.53
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.23
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.43
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.38
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.27
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.00
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.69
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.86
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.31
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.83
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.55
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.73
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.92
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.29
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.07
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.69
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.72
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.26
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.98
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	32.79
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.23
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.17
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.01
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.89
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.75
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.47
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.95
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.23
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.37
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.91
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.74
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.36
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.47
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.15
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.48
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	42.37
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	42.19
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	35.84
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	32.03
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.74
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.68
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.23
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.72
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.58
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.08
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.41
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.14
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.84
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.36
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.25
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.72
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	36.24
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.92
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.33
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.09
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.54
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.95
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.31
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.88
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.78
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.81
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.80
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.93
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.02
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.25
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.11
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.61
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	65.86
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	63.92
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	52.14
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	49.68
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	47.35
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	42.56
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	40.57
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	39.01
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	36.37
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	34.46
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	34.21
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	32.26
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	30.11
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	26.17
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.84
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.41
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	8.02
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	7.51
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	7.16
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	6.41
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	5.56
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	4.32
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	2.87
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	2.67
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	1.61
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	1.44

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.