Gene detail

Detailed information of OS493_026928-T1 in Lophelia pertusa

Genomic Location: scaffold_142:301642...302775
NR annotation: KAJ7371284.1, hypothetical protein OS493_026928 [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
Q91VY9	Cytoplasmic 60S subunit biogenesis factor ZNF622 OS=Mus musculus OX=10090 GN=Znf622 PE=1 SV=1
Q969S3	Cytoplasmic 60S subunit biogenesis factor ZNF622 OS=Homo sapiens OX=9606 GN=ZNF622 PE=1 SV=1
Q90Y35	Cytoplasmic 60S subunit biogenesis factor ZNF622 OS=Gallus gallus OX=9031 GN=ZNF622 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0008964 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF12171 all species →	zf-C2H2_jaz	Zinc-finger double-stranded RNA-binding	Family	Interproscan
PF12756 all species →	zf-C2H2_2	C2H2 type zinc-finger (2 copies)	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR013087 all species →	Domain	Zinc finger C2H2-type	Interproscan
IPR036236 all species →	Homologous_superfamily	Zinc finger C2H2 superfamily	Interproscan
IPR022755 all species →	Domain	Zinc finger, double-stranded RNA binding	Interproscan
IPR041661 all species →	Domain	ZN622/Rei1/Reh1, zinc finger C2H2-type	Interproscan
IPR040025 all species →	Family	Zinc finger protein 622/Rei1/Reh1	Interproscan
IPR003604 all species →	Domain	Matrin/U1-C-like, C2H2-type zinc finger	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR13182 all species →	ZINC FINGER PROTEIN 622	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0030687 all species →	Cellular Component	preribosome, large subunit precursor	Interproscan
GO:0042273 all species →	Biological Process	ribosomal large subunit biogenesis	Interproscan
GO:0003676 all species →	Molecular Function	nucleic acid binding	Interproscan
GO:0008270 all species →	Molecular Function	zinc 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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K14816	REI1; pre-60S factor REI1	-	Ribosome biogenesis	ko03009	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_026928-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

78.7Max TPM

21.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	10.95	15.15
polyp at pH7 6	18	18	16.39	21.71
coral polyp · control treatment	16	16	22.82	41.62
coral polyp · oil and dispersant treatment	16	16	37.30	66.13
coral polyp · oil treatment	16	16	16.28	23.46
coral polyp · dispersant treatment	16	16	31.43	78.74
Polyp	10	10	10.11	19.65

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	-	15.15
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.22
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.71
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.24
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.19
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.16
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.00
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.68
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.23
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.90
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.74
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.54
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.40
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.27
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.80
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.12
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.94
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.86
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.71
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.52
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.06
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.61
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.33
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.50
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.18
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.40
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.54
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.09
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.89
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.25
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.95
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.04
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.66
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.36
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.34
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.52
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	41.62
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	39.27
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	32.41
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.94
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.76
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.69
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.76
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.94
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.46
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.12
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.96
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.03
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.50
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.63
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.19
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.84
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	66.13
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	53.58
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	45.29
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	43.81
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	42.42
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	40.74
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	40.19
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	40.05
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	34.88
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	32.99
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	31.96
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	30.59
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	28.44
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.00
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.54
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.12
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.46
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.92
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.55
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.90
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.66
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.83
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.73
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.04
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.07
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.82
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.47
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.47
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.28
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.99
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.05
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.26
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	78.74
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	50.69
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	45.10
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	44.09
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	41.42
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	39.29
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	36.22
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	26.37
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.20
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.35
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.71
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.06
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.67
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.18
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.39
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.39
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	19.65
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	11.52
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	10.41
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	10.29
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	9.77
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	9.20
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	8.21
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	7.81
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	7.40
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	6.83

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.