Gene detail

Detailed information of OS493_016466-T1 in Lophelia pertusa

Genomic Location: scaffold_50:1715460...1723127
NR annotation: KAJ7385385.1, hypothetical protein OS493_016466 [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
Q7YTC2	Homeobox protein orthopedia OS=Saccoglossus kowalevskii OX=10224 GN=otp PE=2 SV=1
Q6SZ65	Homeobox protein orthopedia OS=Lytechinus variegatus OX=7654 GN=Otp PE=2 SV=1
Q6SR69	Homeobox protein orthopedia OS=Heliocidaris erythrogramma OX=7634 GN=Otp PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007423 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00046 all species →	Homeodomain	Homeodomain	Domain	Interproscan
PF03826 all species →	OAR	OAR motif	Motif	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR017970 all species →	Conserved_site	Homeobox, conserved site	Interproscan
IPR000047 all species →	Conserved_site	Helix-turn-helix motif	Interproscan
IPR051895 all species →	Family	Orthopedia Homeobox	Interproscan
IPR003654 all species →	Domain	OAR domain	Interproscan
IPR001356 all species →	Domain	Homeobox domain	Interproscan
IPR009057 all species →	Homologous_superfamily	Homeobox-like domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR46770 all species →	HOMEOBOX PROTEIN ORTHOPEDIA	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000981 all species →	Molecular Function	DNA-binding transcription factor activity, RNA polymerase II-specific	Interproscan
GO:0006355 all species →	Biological Process	regulation of DNA-templated transcription	Interproscan
GO:0003677 all species →	Molecular Function	DNA binding	Interproscan
GO:0030182 all species →	Biological Process	neuron differentiation	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
K24901	OTP; homeobox protein orthopedia	-	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_016466-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

108TPM > 0

7Conditions

14.9Max TPM

5.9Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	6.46	14.13
polyp at pH7 6	18	16	5.42	13.27
coral polyp · control treatment	16	16	8.14	14.86
coral polyp · oil and dispersant treatment	16	16	5.01	10.41
coral polyp · oil treatment	16	16	5.67	11.33
coral polyp · dispersant treatment	16	16	5.08	12.67
Polyp	10	10	4.77	10.19

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.13
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.67
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.72
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.45
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.26
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.42
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.38
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.11
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.88
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.76
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.45
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.36
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.32
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.27
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.73
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.18
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.18
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.94
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.27
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.98
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.04
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.46
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.11
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.07
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.55
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.39
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.01
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.00
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.97
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.28
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.79
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.56
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.31
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.85
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.86
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.46
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.44
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.21
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.54
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.76
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.64
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.02
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.02
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.81
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.47
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.43
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.15
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.73
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.69
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.05
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.41
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.15
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.63
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.52
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.77
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.74
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.47
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.59
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.99
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.77
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.21
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.79
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.67
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.55
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.71
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.20
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.33
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.31
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.20
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.04
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.85
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.77
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.57
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.74
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.07
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.80
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.95
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.32
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.78
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.63
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.99
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.39
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.67
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.58
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.21
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.08
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.40
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.25
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.75
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.14
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.85
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.37
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.53
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.34
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.34
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.98
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.45
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.30
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	10.19
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	9.95
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	9.42
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	6.03
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	3.46
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	2.52
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	2.20
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	1.87
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	1.50
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.60

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.