Gene detail

Detailed information of OS493_011103-T1 in Lophelia pertusa

Genomic Location: scaffold_28:394735...396156
NR annotation: KAJ7373506.1, hypothetical protein OS493_011103 [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
Q15915	Zinc finger protein ZIC 1 OS=Homo sapiens OX=9606 GN=ZIC1 PE=1 SV=2
Q8JJC0	Zinc finger protein ZIC 1 OS=Gallus gallus OX=9031 GN=ZIC1 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001009 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00096 all species →	zf-C2H2	Zinc finger, C2H2 type	Domain	Interproscan
PF18366 all species →	zf_ZIC	Zic proteins zinc finger domain	Domain	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
IPR050329 all species →	Family	GLI C2H2-type zinc-finger	Interproscan
IPR041643 all species →	Domain	ZIC protein, zinc finger domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR19818 all species →	ZINC FINGER PROTEIN ZIC AND GLI	Interproscan

Gene Ontology

GO term	Category	Description	Source
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

No KEGG orthology assignment for OS493_011103-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_011103-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

106.0Max TPM

22.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	33.16	73.63
polyp at pH7 6	18	18	19.30	42.50
coral polyp · control treatment	16	16	32.34	72.86
coral polyp · oil and dispersant treatment	16	16	9.71	21.95
coral polyp · oil treatment	16	16	19.78	48.86
coral polyp · dispersant treatment	16	16	10.37	42.01
Polyp	10	10	34.84	106.00

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	73.63
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	71.45
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	47.56
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	44.70
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	44.68
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	43.07
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	40.49
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	38.89
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.65
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.17
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.41
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.12
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.68
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.73
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.18
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.17
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.93
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.28
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	42.50
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	40.41
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.81
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.82
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.06
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.80
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.67
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.60
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.90
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.42
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.61
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.20
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.31
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.64
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.59
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.16
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.03
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.85
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	72.86
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	69.41
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	67.64
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	56.23
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	44.82
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	42.59
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.90
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.64
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.08
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.51
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.30
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.36
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.53
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.90
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.21
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.43
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.95
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.57
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.51
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.79
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.74
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.37
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.99
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.32
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.11
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.06
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.10
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.36
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.96
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.28
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.06
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.24
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	48.86
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	36.57
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	32.76
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.92
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.43
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.14
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.17
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.89
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.87
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.16
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.09
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.54
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.45
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.94
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.28
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.45
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	42.01
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	28.07
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.79
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.28
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.02
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.99
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.09
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.61
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.24
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.19
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.26
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.01
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.34
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.56
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.29
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.12
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	106.00
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	77.31
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	36.99
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	30.84
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	27.53
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	23.71
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	19.60
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	13.00
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	11.44
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	1.95

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.