Gene detail

Detailed information of OS493_000210-T1 in Lophelia pertusa

Genomic Location: scaffold_1:2339045...2340253
NR annotation: KAJ7394401.1, metanephric macula densa development [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
P31365	POU domain, class 3, transcription factor 2-A OS=Xenopus laevis OX=8355 GN=pou3f2-a PE=2 SV=2
P70030	POU domain, class 3, transcription factor 2-B OS=Xenopus laevis OX=8355 GN=pou3f2-b PE=2 SV=1
P79746	POU domain, class 3, transcription factor 2 OS=Danio rerio OX=7955 GN=pou3f2 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001851 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00157 all species →	Pou	Pou domain - N-terminal to homeobox domain	Domain	Interproscan
PF00046 all species →	Homeodomain	Homeodomain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR010982 all species →	Homologous_superfamily	Lambda repressor-like, DNA-binding domain superfamily	Interproscan
IPR000327 all species →	Domain	POU-specific domain	Interproscan
IPR050255 all species →	Family	POU domain transcription factor	Interproscan
IPR001356 all species →	Domain	Homeobox domain	Interproscan
IPR017970 all species →	Conserved_site	Homeobox, conserved site	Interproscan
IPR009057 all species →	Homologous_superfamily	Homeobox-like domain superfamily	Interproscan
IPR013847 all species →	Domain	POU domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11636 all species →	POU DOMAIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003677 all species →	Molecular Function	DNA binding	Interproscan
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:0000981 all species →	Molecular Function	DNA-binding transcription factor activity, RNA polymerase II-specific	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
K09365	POU3F, OTF; POU domain transcription factor, class 3	-	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_000210-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

222.8Max TPM

83.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	100.31	128.63
polyp at pH7 6	18	18	89.42	113.66
coral polyp · control treatment	16	16	83.03	143.38
coral polyp · oil and dispersant treatment	16	16	48.05	105.27
coral polyp · oil treatment	16	16	68.48	124.00
coral polyp · dispersant treatment	16	16	92.67	222.83
Polyp	10	10	107.10	172.62

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	-	128.63
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	126.01
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	124.45
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	121.47
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	118.38
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	116.86
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	110.62
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	110.14
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	97.06
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	96.18
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	93.52
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	92.79
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	90.58
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	89.24
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	84.62
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	84.12
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	65.27
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	55.66
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	113.66
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	111.99
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	107.14
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	107.03
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	102.32
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	94.78
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	88.44
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	87.21
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	86.34
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	85.39
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	85.12
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	84.50
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	84.00
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	81.92
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	79.71
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	79.06
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	66.90
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	64.05
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	143.38
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	134.53
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	129.77
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	119.43
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	93.31
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	92.70
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	88.18
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	87.24
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	74.56
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	63.49
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	61.08
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	57.78
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	54.37
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	51.62
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	47.08
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.90
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	105.27
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	73.67
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	68.18
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	56.33
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	51.35
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	50.90
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	46.26
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	45.72
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	44.76
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	43.90
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	41.83
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	36.91
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	32.28
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	31.43
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.47
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.62
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	124.00
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	102.57
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	85.06
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	82.09
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	81.38
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	78.24
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	78.20
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	73.96
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	67.33
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	62.74
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	57.95
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	53.96
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	50.68
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	35.64
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.99
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.88
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	222.83
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	197.91
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	163.23
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	120.75
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	105.70
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	88.25
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	81.53
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	80.24
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	78.92
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	70.33
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	65.14
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	63.67
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	61.89
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	36.18
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	27.06
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.05
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	172.62
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	170.82
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	131.44
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	129.88
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	120.36
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	108.16
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	80.66
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	79.62
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	47.81
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	29.60

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.