Gene detail

Detailed information of OS493_010961-T1 in Lophelia pertusa

Genomic Location: scaffold_27:2194675...2201528
NR annotation: KAJ7380246.1, hypothetical protein OS493_010961 [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
O42115	Aristaless-related homeobox protein OS=Danio rerio OX=7955 GN=arx PE=2 SV=1
Q96QS3	Homeobox protein ARX OS=Homo sapiens OX=9606 GN=ARX PE=1 SV=1
O35085	Homeobox protein ARX OS=Mus musculus OX=10090 GN=Arx PE=1 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0009074 (this species only) · gene tree & orthology

Pfam domain

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

InterPro

InterPro term	Type	Description	Source
IPR001356 all species →	Domain	Homeobox domain	Interproscan
IPR009057 all species →	Homologous_superfamily	Homeobox-like domain superfamily	Interproscan
IPR003654 all species →	Domain	OAR domain	Interproscan
IPR050649 all species →	Family	Paired Homeobox Transcription Factors	Interproscan
IPR017970 all species →	Conserved_site	Homeobox, conserved site	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR24329 all species →	HOMEOBOX PROTEIN ARISTALESS	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003677 all species →	Molecular Function	DNA binding	Interproscan
GO:0000977 all species →	Molecular Function	RNA polymerase II transcription regulatory region sequence-specific DNA binding	Interproscan
GO:0000981 all species →	Molecular Function	DNA-binding transcription factor activity, RNA polymerase II-specific	Interproscan
GO:0006357 all species →	Biological Process	regulation of transcription by RNA polymerase II	Interproscan
GO:0006355 all species →	Biological Process	regulation of DNA-templated transcription	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_010961-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_010961-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

190.6Max TPM

27.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	8.08	15.05
polyp at pH7 6	18	18	18.66	50.37
coral polyp · control treatment	16	16	37.62	107.55
coral polyp · oil and dispersant treatment	16	16	51.18	121.87
coral polyp · oil treatment	16	16	20.61	58.01
coral polyp · dispersant treatment	16	16	38.84	190.58
Polyp	10	10	12.94	40.68

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	-	15.05
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.42
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.41
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.66
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.64
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.40
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.11
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.05
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.89
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.13
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.90
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.11
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.19
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.17
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.16
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.43
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.90
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.80
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	50.37
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	48.83
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	39.38
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	35.39
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.07
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.92
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.81
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.72
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.50
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.84
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.97
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.68
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.16
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.70
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.34
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.10
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.73
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.43
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	107.55
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	105.80
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	61.59
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	46.54
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	46.01
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	43.61
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	41.41
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	32.03
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.20
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.45
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.86
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.98
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.31
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.71
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.72
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.18
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	121.87
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	99.56
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	93.48
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	92.43
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	60.24
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	56.29
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	55.41
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	48.16
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	41.65
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	35.55
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	33.47
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	29.34
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.14
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.68
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.77
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.81
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	58.01
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	34.65
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.23
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.98
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.78
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.30
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.97
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.55
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.96
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.92
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.44
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.02
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.02
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.49
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.29
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.17
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	190.58
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	57.64
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	49.55
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	48.59
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	39.88
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	36.61
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	33.81
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	33.36
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	28.67
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	28.04
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.05
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.60
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.42
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.72
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.18
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.76
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	40.68
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	18.87
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	17.88
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	13.24
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	9.63
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	9.36
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	7.49
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	7.36
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	4.11
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	0.80

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.