Gene detail

Detailed information of OS493_005656-T1 in Lophelia pertusa

Genomic Location: scaffold_11:3732351...3734003
NR annotation: KAJ7365543.1, Zinc finger C2HC domain-containing protein 1C [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
Q5PPV5	Zinc finger C2HC domain-containing protein 1A OS=Xenopus laevis OX=8355 GN=zc2hc1a PE=2 SV=1
Q8BJH1	Zinc finger C2HC domain-containing protein 1A OS=Mus musculus OX=10090 GN=Zc2hc1a PE=1 SV=1
Q96GY0	Zinc finger C2HC domain-containing protein 1A OS=Homo sapiens OX=9606 GN=ZC2HC1A PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0010465 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF13913 all species →	zf-C2HC_2	zinc-finger of a C2HC-type	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR026104 all species →	Family	Zinc finger C2HC domain-containing protein 1C	Interproscan
IPR049899 all species →	Domain	Zinc finger, C2HC/C3H-type	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR14649 all species →	ZINC FINGER C2HC DOMAIN-CONTAINING PROTEIN 1C	Interproscan

Gene Ontology

No Gene Ontology signature was detected for OS493_005656-T1. This gene does have a gene model — the search simply returned no hit.

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_005656-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_005656-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

126.2Max TPM

23.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	6.62	12.21
polyp at pH7 6	18	18	7.35	21.49
coral polyp · control treatment	16	16	23.32	82.01
coral polyp · oil and dispersant treatment	16	16	20.13	39.30
coral polyp · oil treatment	16	16	18.48	32.35
coral polyp · dispersant treatment	16	16	72.49	126.20
Polyp	10	10	15.94	39.12

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.21
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.03
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.94
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.72
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.53
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.46
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.24
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.20
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.00
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.60
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.40
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.11
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.98
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.95
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.27
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.03
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.84
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.73
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.49
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.46
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.04
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.22
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.47
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.56
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.45
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.84
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.04
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.83
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.28
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.10
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.36
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.92
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.69
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.78
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.41
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.38
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	82.01
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	62.90
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	47.14
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.25
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.53
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.46
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.62
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.25
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.53
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.51
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.53
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.45
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.25
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.91
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.02
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.74
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	39.30
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.65
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.04
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.69
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.27
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.87
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.72
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.33
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.25
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.75
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.17
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.75
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.66
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.01
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.96
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.62
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	32.35
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.88
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.46
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.11
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.85
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.08
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.89
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.27
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.63
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.14
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.98
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.19
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.34
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.66
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.67
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.15
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	126.20
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	124.25
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	105.94
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	94.61
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	86.45
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	81.92
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	64.29
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	64.09
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	62.47
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	62.11
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	61.18
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	58.10
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	48.73
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	42.39
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	41.54
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	35.56
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	39.12
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	35.36
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	22.88
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	19.22
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	11.20
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	10.84
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	6.65
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	6.17
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	4.88
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	3.08

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.