Gene detail

Detailed information of OS493_024219-T1 in Lophelia pertusa

Genomic Location: scaffold_111:1121457...1122110
NR annotation: KAJ7378269.1, hypothetical protein OS493_024219 [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
Q24255	Homeobox protein B-H1 OS=Drosophila melanogaster OX=7227 GN=B-H1 PE=2 SV=2
P22544	Homeobox protein B-H1 OS=Drosophila ananassae OX=7217 GN=B-H1 PE=2 SV=1
Q24256	Homeobox protein B-H2 OS=Drosophila melanogaster OX=7227 GN=B-H2 PE=1 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001829 (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
IPR017970 all species →	Conserved_site	Homeobox, conserved site	Interproscan
IPR009057 all species →	Homologous_superfamily	Homeobox-like domain superfamily	Interproscan
IPR050460 all species →	Family	Distal-less homeobox transcription factors	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR24327 all species →	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:0000978 all species →	Molecular Function	RNA polymerase II cis-regulatory region sequence-specific DNA binding	Interproscan
GO:0006357 all species →	Biological Process	regulation of transcription by RNA polymerase II	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_024219-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_024219-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

217.0Max TPM

26.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	9.23	19.94
polyp at pH7 6	18	18	9.23	16.87
coral polyp · control treatment	16	16	18.73	43.11
coral polyp · oil and dispersant treatment	16	16	24.91	44.41
coral polyp · oil treatment	16	16	14.84	30.53
coral polyp · dispersant treatment	16	16	93.42	216.95
Polyp	10	10	13.71	44.29

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	-	19.94
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.70
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.98
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.08
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.38
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.26
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.05
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.35
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.69
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.81
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.77
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.43
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.04
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.60
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.47
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.17
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.59
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.77
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.87
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.78
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.51
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.94
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.10
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.03
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.14
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.07
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.27
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.33
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.18
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.92
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.21
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.93
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.49
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.09
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.57
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.79
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	43.11
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.48
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.88
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.10
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.69
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.97
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.95
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.94
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.50
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.01
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.69
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.15
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.39
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.90
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.21
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.66
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	44.41
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	41.15
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	37.73
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	33.87
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	31.82
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	31.58
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	28.44
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.21
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.70
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.62
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.28
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.67
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.09
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.00
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.52
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.47
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.53
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.31
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.36
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.51
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.67
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.02
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.32
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.08
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.59
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.57
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.13
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.81
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.59
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.87
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.18
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.93
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	216.95
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	178.46
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	138.12
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	135.93
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	120.33
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	115.87
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	99.03
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	88.44
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	74.01
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	73.78
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	68.60
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	49.79
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	45.96
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	31.80
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	30.67
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	27.00
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	44.29
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	35.34
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	15.42
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	12.37
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	7.44
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	5.89
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	5.69
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	5.11
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	3.08
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	2.45

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.