Gene detail

Detailed information of OS493_037181-T1 in Lophelia pertusa

Genomic Location: scaffold_406:93590...101499
NR annotation: KAJ7369681.1, hypothetical protein OS493_037181 [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
A0JPN1	H2.0-like homeobox protein OS=Rattus norvegicus OX=10116 GN=Hlx PE=2 SV=1
Q61670	H2.0-like homeobox protein OS=Mus musculus OX=10090 GN=Hlx PE=2 SV=1
Q14774	H2.0-like homeobox protein OS=Homo sapiens OX=9606 GN=HLX PE=1 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001822 (this species only) · gene tree & orthology

Pfam domain

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

InterPro

InterPro term	Type	Description	Source
IPR020479 all species →	Domain	Homeobox domain, metazoa	Interproscan
IPR001356 all species →	Domain	Homeobox domain	Interproscan
IPR000047 all species →	Conserved_site	Helix-turn-helix motif	Interproscan
IPR017970 all species →	Conserved_site	Homeobox, conserved site	Interproscan
IPR052497 all species →	Family	H2.0 Homeobox Transcription Factors	Interproscan
IPR009057 all species →	Homologous_superfamily	Homeobox-like domain superfamily	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: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: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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K09339	HLX1; homeobox protein HLX1	-	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_037181-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

87.2Max TPM

24.9Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	38.15	79.78
polyp at pH7 6	18	18	33.78	75.70
coral polyp · control treatment	16	16	23.68	55.93
coral polyp · oil and dispersant treatment	16	15	11.34	33.59
coral polyp · oil treatment	16	16	32.91	87.17
coral polyp · dispersant treatment	16	16	11.94	32.95
Polyp	10	10	16.16	39.16

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	79.78
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	79.25
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	56.01
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	50.20
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	48.21
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	45.73
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	45.02
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	43.85
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	43.66
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	42.77
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.69
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.49
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.65
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.34
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.59
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.44
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.41
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.65
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	75.70
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	60.60
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	39.77
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	38.31
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	36.67
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	36.09
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	35.73
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	33.17
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	32.03
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	31.76
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.86
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.45
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.68
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.27
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.65
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.44
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.71
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.23
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	55.93
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	49.28
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	48.28
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.52
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.07
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.90
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.19
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.08
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.44
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.23
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.04
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.02
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.29
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.45
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.98
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.21
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	33.59
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	33.56
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.19
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.07
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.83
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.31
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.23
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.02
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.27
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.05
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.00
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.07
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.82
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.70
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.77
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	87.17
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	56.57
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	56.48
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	55.83
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	51.27
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	46.22
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	36.71
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.49
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.80
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.92
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.51
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.09
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.82
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.02
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.17
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.51
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	32.95
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.31
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.49
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.27
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.20
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.93
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.70
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.76
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.48
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.37
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.70
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.23
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.07
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.74
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.63
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.19
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	39.16
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	36.81
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	33.57
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	20.19
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	8.04
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	7.68
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	5.73
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	3.74
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	3.70
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	2.94

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.