Gene detail

Detailed information of OS493_001424-T1 in Lophelia pertusa

Genomic Location: scaffold_3:1177441...1183775
NR annotation: KAJ7381303.1, GATA zinc finger domain-containing protein 1 [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
Q1L8G7	GATA zinc finger domain-containing protein 1 OS=Danio rerio OX=7955 GN=gatad1 PE=2 SV=1
Q920S3	GATA zinc finger domain-containing protein 1 OS=Mus musculus OX=10090 GN=Gatad1 PE=2 SV=2
Q8WUU5	GATA zinc finger domain-containing protein 1 OS=Homo sapiens OX=9606 GN=GATAD1 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006903 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00320 all species →	GATA	GATA zinc finger	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR000679 all species →	Domain	Zinc finger, GATA-type	Interproscan
IPR013088 all species →	Homologous_superfamily	Zinc finger, NHR/GATA-type	Interproscan
IPR039050 all species →	Family	GATA zinc finger domain-containing protein 1	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR13340 all species →	GATA ZINC FINGER DOMAIN-CONTAINING	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0006355 all species →	Biological Process	regulation of DNA-templated transcription	Interproscan
GO:0043565 all species →	Molecular Function	sequence-specific DNA binding	Interproscan
GO:0008270 all species →	Molecular Function	zinc ion binding	Interproscan
GO:0006325 all species →	Biological Process	chromatin organization	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
K23407	GATAD1; GATA zinc finger domain-containing protein 1	-	Chromosome and associated proteins	ko03036	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_001424-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

109TPM > 0

7Conditions

21.8Max TPM

9.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	9.71	13.12
polyp at pH7 6	18	17	10.11	16.49
coral polyp · control treatment	16	16	12.08	21.81
coral polyp · oil and dispersant treatment	16	16	7.72	12.53
coral polyp · oil treatment	16	16	9.71	15.69
coral polyp · dispersant treatment	16	16	5.98	15.14
Polyp	10	10	10.29	20.73

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.12
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.31
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.98
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.75
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.63
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.05
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.61
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.89
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.61
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.56
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.42
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.22
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.38
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.15
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.99
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.76
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.81
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.47
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.49
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.30
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.18
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.33
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.95
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.90
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.69
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.55
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.49
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.44
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.31
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.98
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.91
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.87
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.59
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.78
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.29
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.81
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.58
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.21
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.75
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.33
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.65
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.29
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.43
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.72
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.01
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.78
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.52
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.88
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.27
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.65
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.38
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.53
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.84
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.09
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.49
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.50
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.35
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.76
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.07
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.62
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.33
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.94
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.55
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.29
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.71
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.02
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.48
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.69
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.49
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.15
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.03
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.74
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.07
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.03
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.85
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.99
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.83
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.81
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.58
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.40
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.23
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.95
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.60
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.14
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.90
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.61
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.01
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.79
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.43
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.18
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.06
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.55
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.00
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.97
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.71
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.12
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.79
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.31
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.11
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	20.73
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	15.80
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	11.32
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	10.60
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	9.12
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	7.37
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	7.36
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	7.06
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	6.99
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	6.52

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.