Gene detail

Detailed information of OS493_039195-T1 in Lophelia pertusa

Genomic Location: scaffold_983:3224...11934
NR annotation: KAJ7348761.1, btaf1 RNA polymerase II [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
O14981	TATA-binding protein-associated factor 172 OS=Homo sapiens OX=9606 GN=BTAF1 PE=1 SV=2
O43065	TATA-binding protein-associated factor mot1 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) OX=284812 GN=mot1 PE=1 SV=4
P32333	TATA-binding protein-associated factor MOT1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) OX=559292 GN=MOT1 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0002291 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00271 all species →	Helicase_C	Helicase conserved C-terminal domain	Domain	Interproscan
PF00176 all species →	SNF2-rel_dom	SNF2-related domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR001650 all species →	Domain	Helicase, C-terminal domain-like	Interproscan
IPR027417 all species →	Homologous_superfamily	P-loop containing nucleoside triphosphate hydrolase	Interproscan
IPR038718 all species →	Homologous_superfamily	SNF2-like, N-terminal domain superfamily	Interproscan
IPR049730 all species →	Domain	SNF2/RAD5-like, C-terminal helicase domain	Interproscan
IPR014001 all species →	Domain	Helicase superfamily 1/2, ATP-binding domain	Interproscan
IPR000330 all species →	Domain	SNF2, N-terminal	Interproscan
IPR044972 all species →	Family	TATA-binding protein-associated factor Mot1	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR36498 all species →	TATA-BINDING PROTEIN-ASSOCIATED FACTOR 172	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005524 all species →	Molecular Function	ATP binding	Interproscan
GO:0140658 all species →	Molecular Function	ATP-dependent chromatin remodeler activity	Interproscan
GO:0003677 all species →	Molecular Function	DNA binding	Interproscan
GO:0016887 all species →	Molecular Function	ATP hydrolysis activity	Interproscan
GO:0017025 all species →	Molecular Function	TBP-class protein 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

No KEGG orthology assignment for OS493_039195-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_039195-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

78.1Max TPM

25.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	27.66	38.16
polyp at pH7 6	18	18	30.01	51.88
coral polyp · control treatment	16	16	29.42	78.10
coral polyp · oil and dispersant treatment	16	16	19.83	58.15
coral polyp · oil treatment	16	16	25.60	34.32
coral polyp · dispersant treatment	16	16	16.00	32.51
Polyp	10	10	27.89	49.82

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	38.16
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	36.63
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	35.68
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	35.41
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	35.26
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	33.61
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	31.60
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.72
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.29
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.44
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.98
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.98
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.79
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.11
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.34
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.16
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.34
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.30
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	51.88
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	51.64
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	51.26
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	48.80
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	33.63
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	31.72
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	31.55
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.50
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.84
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.02
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.14
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.12
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.17
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.61
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.31
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.77
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.49
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.82
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	78.10
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	40.40
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	38.17
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	36.93
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.17
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.78
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.38
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.00
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.32
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.55
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.03
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.27
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.18
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.23
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.27
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.97
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	58.15
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.96
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.46
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.41
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.34
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.31
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.52
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.94
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.88
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.74
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.53
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.45
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.21
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.33
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.42
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.60
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	34.32
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	33.68
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	33.00
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	32.83
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.24
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.72
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.31
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.96
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.93
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.75
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.98
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.90
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.88
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.94
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.32
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.75
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	32.51
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.36
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.33
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.77
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.21
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.57
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.43
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.70
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.07
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.69
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.46
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.09
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.15
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.73
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.55
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.33
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	49.82
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	38.76
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	36.15
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	33.15
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	27.25
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	23.21
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	21.20
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	18.30
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	17.27
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	13.74

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.