Gene detail

Detailed information of OS493_021813-T1 in Lophelia pertusa

Genomic Location: scaffold_86:436125...437507
NR annotation: KAJ7384402.1, hypothetical protein OS493_021813 [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
Q9IB89	Zinc finger protein ZIC 5 OS=Xenopus laevis OX=8355 GN=zic5 PE=2 SV=1
Q9YIB7	Zinc finger protein ZIC 2-B OS=Xenopus laevis OX=8355 GN=zic2-b PE=2 SV=1
O73689	Zinc finger protein ZIC 1 OS=Xenopus laevis OX=8355 GN=zic1 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000976 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00096 all species →	zf-C2H2	Zinc finger, C2H2 type	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR013087 all species →	Domain	Zinc finger C2H2-type	Interproscan
IPR043359 all species →	Family	C2H2-type zinc-finger protein GLI-like	Interproscan
IPR036236 all species →	Homologous_superfamily	Zinc finger C2H2 superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR45718 all species →	TRANSCRIPTIONAL ACTIVATOR CUBITUS INTERRUPTUS	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000977 all species →	Molecular Function	RNA polymerase II transcription regulatory region sequence-specific DNA binding	Interproscan
GO:0000978 all species →	Molecular Function	RNA polymerase II cis-regulatory region sequence-specific DNA binding	Interproscan
GO:0000981 all species →	Molecular Function	DNA-binding transcription factor activity, RNA polymerase II-specific	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0006357 all species →	Biological Process	regulation of transcription by RNA polymerase II	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
K09225	ZIC4; zinc finger protein ZIC 4	-	Transcription factors	ko03000	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_021813-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

21.7Max TPM

7.9Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	7.36	10.97
polyp at pH7 6	18	18	7.57	10.64
coral polyp · control treatment	16	16	12.14	21.66
coral polyp · oil and dispersant treatment	16	16	6.44	11.20
coral polyp · oil treatment	16	16	8.24	11.46
coral polyp · dispersant treatment	16	16	6.88	17.72
Polyp	10	10	5.95	15.48

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.97
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.80
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.26
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.52
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.30
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.24
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.05
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.81
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.49
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.75
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.46
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.28
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.28
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.27
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.19
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.46
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.21
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.06
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.64
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.96
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.73
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.69
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.29
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.26
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.93
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.52
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.77
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.75
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.40
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.46
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.35
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.15
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.13
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.96
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.28
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.03
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.66
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.04
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.11
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.88
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.82
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.81
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.24
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.14
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.48
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.70
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.68
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.56
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.15
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.56
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.62
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.84
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.20
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.45
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.25
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.21
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.91
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.90
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.46
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.01
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.86
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.79
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.72
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.46
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.57
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.76
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.50
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.01
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.46
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.95
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.49
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.18
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.06
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.89
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.59
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.43
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.21
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.14
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.35
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.80
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.43
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.20
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.55
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.20
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.72
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.36
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.65
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.63
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.35
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.03
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.35
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.49
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.65
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.60
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.60
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.89
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.65
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.47
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.38
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.24
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	15.48
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	12.88
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	8.38
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	6.84
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	4.98
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	4.09
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	2.75
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	2.16
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	1.48
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	0.42

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.