Gene detail

Detailed information of OS493_008877-T1 in Lophelia pertusa

Genomic Location: scaffold_21:890531...895256
NR annotation: KAJ7380420.1, Forkhead box protein N3 [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
O00409	Forkhead box protein N3 OS=Homo sapiens OX=9606 GN=FOXN3 PE=1 SV=1
Q33BP8	Forkhead box protein N3 OS=Sus scrofa OX=9823 GN=FOXN3 PE=2 SV=1
Q3BJS3	Forkhead box protein N3 OS=Xenopus laevis OX=8355 GN=foxn3 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006764 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00250 all species →	Forkhead	Forkhead domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR001766 all species →	Domain	Fork head domain	Interproscan
IPR036388 all species →	Homologous_superfamily	Winged helix-like DNA-binding domain superfamily	Interproscan
IPR018122 all species →	Conserved_site	Fork head domain conserved site1	Interproscan
IPR030456 all species →	Conserved_site	Fork head domain conserved site 2	Interproscan
IPR047119 all species →	Family	Forkhead box protein N2/3-like	Interproscan
IPR047404 all species →	Domain	Forkhead box protein N3, forkhead domain	Interproscan
IPR036390 all species →	Homologous_superfamily	Winged helix DNA-binding domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR13962 all species →	FORKHEAD BOX PROTEIN N3-LIKE PROTEIN-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003700 all species →	Molecular Function	DNA-binding transcription factor activity	Interproscan
GO:0006355 all species →	Biological Process	regulation of DNA-templated transcription	Interproscan
GO:0043565 all species →	Molecular Function	sequence-specific DNA binding	Interproscan
GO:0000987 all species →	Molecular Function	cis-regulatory region sequence-specific DNA binding	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	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
K09407	FOXN; forkhead box protein N	-	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_008877-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

24.0Max TPM

11.5Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	11.36	17.59
polyp at pH7 6	18	18	10.13	18.70
coral polyp · control treatment	16	16	14.43	23.68
coral polyp · oil and dispersant treatment	16	16	12.59	22.18
coral polyp · oil treatment	16	16	10.96	16.01
coral polyp · dispersant treatment	16	16	14.23	24.04
Polyp	10	9	4.73	8.15

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	-	17.59
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.34
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.10
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.70
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.03
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.98
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.11
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.45
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.79
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.22
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.99
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.59
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.52
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.18
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.07
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.73
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.63
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.51
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.70
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.81
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.49
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.42
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.61
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.33
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.49
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.02
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.72
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.13
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.93
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.11
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.77
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.28
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.60
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.46
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.29
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.13
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.68
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.94
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.80
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.01
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.91
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.31
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.83
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.78
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.35
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.86
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.43
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.29
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.73
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.35
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.49
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.10
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.18
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.56
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.85
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.58
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.08
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.67
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.21
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.44
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.77
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.28
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.17
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.41
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.86
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.70
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.48
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.26
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.01
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.48
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.82
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.26
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.25
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.80
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.54
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.51
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.58
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.57
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.11
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.28
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.27
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.98
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.13
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.70
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.04
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.29
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.24
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.50
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.00
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.01
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.75
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.63
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.54
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.47
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.07
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.86
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.76
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.01
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.79
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.74
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	8.15
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	7.30
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	6.98
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	6.32
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	5.41
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	4.92
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	3.76
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	2.93
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	1.54
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	0.00

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.