Gene detail

Detailed information of OS493_016062-T1 in Lophelia pertusa

Genomic Location: scaffold_49:490789...497536
NR annotation: KAJ7391775.1, hypothetical protein OS493_016062 [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
Q61670	H2.0-like homeobox protein OS=Mus musculus OX=10090 GN=Hlx PE=2 SV=1
A0JPN1	H2.0-like homeobox protein OS=Rattus norvegicus OX=10116 GN=Hlx PE=2 SV=1
A7MB54	H2.0-like homeobox protein OS=Bos taurus OX=9913 GN=HLX PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001768 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00046 all species →	Homeodomain	Homeodomain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR001356 all species →	Domain	Homeobox domain	Interproscan
IPR020479 all species →	Domain	Homeobox domain, metazoa	Interproscan
IPR000047 all species →	Conserved_site	Helix-turn-helix motif	Interproscan
IPR009057 all species →	Homologous_superfamily	Homeobox-like domain superfamily	Interproscan
IPR052497 all species →	Family	H2.0 Homeobox Transcription Factors	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR46808 all species →	H2.0-LIKE HOMEOBOX PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003677 all species →	Molecular Function	DNA binding	Interproscan
GO:0043565 all species →	Molecular Function	sequence-specific DNA binding	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_016062-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_016062-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

89TPM > 0

7Conditions

8.6Max TPM

2.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	3.32	8.36
polyp at pH7 6	18	12	2.98	8.63
coral polyp · control treatment	16	14	2.77	7.97
coral polyp · oil and dispersant treatment	16	10	0.49	2.42
coral polyp · oil treatment	16	16	1.03	2.48
coral polyp · dispersant treatment	16	10	2.12	8.12
Polyp	10	9	1.38	2.84

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.36
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.04
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.29
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.45
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.84
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.74
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.41
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.93
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.84
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.51
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.13
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.96
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.70
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.64
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.56
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.42
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.39
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.52
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.63
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.38
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.21
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.90
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.69
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.22
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.68
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.50
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.32
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.00
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.11
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.93
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359524	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
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.97
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.57
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.48
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.73
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.62
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.92
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.80
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.76
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.69
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.93
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.36
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.27
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.25
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.99
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.42
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.02
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.90
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.72
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.58
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.50
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.23
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.21
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.12
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.08
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.48
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.45
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.51
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.25
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.23
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.17
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.11
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.95
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.95
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.91
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.68
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.55
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.52
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.36
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.22
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.17
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.12
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.29
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.37
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.80
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.67
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.02
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.37
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.91
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.88
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.53
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	2.84
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	2.22
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	2.15
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	1.96
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	1.49
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	1.48
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.82
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	0.49
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	0.37
SRR7746669	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.