Gene detail

Detailed information of OS493_028794-T1 in Lophelia pertusa

Genomic Location: scaffold_169:230290...233589
NR annotation: KAJ7389825.1, DNA recombination [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
Q566I1	INO80 complex subunit D OS=Xenopus laevis OX=8355 GN=ino80d PE=2 SV=1
A1L1F6	INO80 complex subunit D-B OS=Danio rerio OX=7955 GN=ino80db PE=2 SV=1
Q53TQ3	INO80 complex subunit D OS=Homo sapiens OX=9606 GN=INO80D PE=1 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003964 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF13891 all species →	zf-C3Hc3H	Potential DNA-binding domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR025927 all species →	Domain	Potential DNA-binding domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR16198 all species →	UNCHARACTERIZED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005634 all species →	Cellular Component	nucleus	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_028794-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_028794-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

69.8Max TPM

33.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	31.02	43.88
polyp at pH7 6	18	18	29.62	39.06
coral polyp · control treatment	16	16	33.82	47.64
coral polyp · oil and dispersant treatment	16	16	42.41	69.82
coral polyp · oil treatment	16	16	36.39	48.94
coral polyp · dispersant treatment	16	16	33.37	49.90
Polyp	10	10	20.76	31.95

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	-	43.88
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	42.88
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	41.88
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	41.37
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	37.00
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	36.86
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	34.92
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	34.78
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	33.08
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	31.32
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.49
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.85
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.23
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.26
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.91
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.83
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.61
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.16
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	39.06
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	38.66
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	38.59
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	35.93
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	34.47
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	32.95
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	32.47
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.53
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.45
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.28
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.52
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.39
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.80
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.81
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.04
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.25
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.74
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.18
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	47.64
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	46.64
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	41.73
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	41.05
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	37.56
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	36.61
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	35.45
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.95
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.84
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.58
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.43
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.10
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.71
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.26
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.58
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.03
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	69.82
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	66.69
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	55.69
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	47.02
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	45.27
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	42.87
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	40.70
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	40.66
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	38.92
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	36.48
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	36.24
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	35.42
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	35.37
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	34.58
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	32.25
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.52
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	48.94
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	48.69
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	46.14
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	45.14
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	45.02
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	44.30
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	43.44
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	38.61
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	37.08
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	34.09
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	32.41
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	32.35
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.90
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.43
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.04
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.70
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	49.90
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	48.09
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	47.47
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	42.17
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	38.89
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	36.89
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	36.88
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	35.39
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	35.25
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	34.38
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	32.91
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	31.68
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.37
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.38
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.08
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.13
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	31.95
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	28.05
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	27.56
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	26.38
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	23.90
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	23.23
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	14.72
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	11.76
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	11.27
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	8.78

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.