Gene detail

Detailed information of OS493_007961-T1 in Lophelia pertusa

Genomic Location: scaffold_18:1969758...1982825
NR annotation: KAJ7337804.1, Chromatin accessibility complex protein 1 [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
Q9LN09	DNA polymerase II subunit B3-1 OS=Arabidopsis thaliana OX=3702 GN=DPB3-1 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0002445 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00808 all species →	CBFD_NFYB_HMF	Histone-like transcription factor (CBF/NF-Y) and archaeal histone	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR003958 all species →	Domain	Transcription factor CBF/NF-Y/archaeal histone domain	Interproscan
IPR050568 all species →	Family	Transcription and DNA Replication Regulators	Interproscan
IPR009072 all species →	Homologous_superfamily	Histone-fold	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10252 all species →	HISTONE-LIKE TRANSCRIPTION FACTOR CCAAT-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0006261 all species →	Biological Process	DNA-templated DNA replication	Interproscan
GO:0006338 all species →	Biological Process	chromatin remodeling	Interproscan
GO:0008623 all species →	Cellular Component	CHRAC	Interproscan
GO:0046982 all species →	Molecular Function	protein heterodimerization activity	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
K11656	CHRAC1, CHRAC15; chromatin accessibility complex protein 1	-	Chromosome and associated proteins	ko03036	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_007961-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

108TPM > 0

7Conditions

112.3Max TPM

20.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	15.82	23.65
polyp at pH7 6	18	16	15.09	27.00
coral polyp · control treatment	16	16	26.74	70.94
coral polyp · oil and dispersant treatment	16	16	21.58	112.30
coral polyp · oil treatment	16	16	21.09	35.39
coral polyp · dispersant treatment	16	16	16.64	35.15
Polyp	10	10	27.02	66.23

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	-	23.65
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.26
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.91
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.91
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.58
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.87
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.96
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.20
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.11
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.66
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.58
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.35
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.92
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.63
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.20
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.17
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.47
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.32
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.00
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.85
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.07
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.26
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.94
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.57
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.92
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.01
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.75
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.91
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.68
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.66
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.28
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.71
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.37
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.55
SRR11359500	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
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	70.94
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.30
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.35
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.03
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.80
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.05
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.84
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.02
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.02
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.59
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.37
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.50
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.17
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.33
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.48
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.07
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	112.30
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.32
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.63
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.43
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.88
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.76
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.43
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.52
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.41
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.04
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.60
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.41
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.13
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.58
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.52
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.29
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	35.39
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	34.23
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.30
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.69
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.60
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.06
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.11
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.99
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.89
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.37
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.41
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.77
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.63
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.75
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.27
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.96
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	35.15
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	31.69
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.01
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.43
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.07
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.72
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.63
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.03
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.25
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.05
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.04
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.69
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.06
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.87
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.80
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.72
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	66.23
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	35.95
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	35.85
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	26.92
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	22.32
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	21.09
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	21.05
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	18.76
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	13.58
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	8.43

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.