Gene detail

Detailed information of OS493_004804-T1 in Lophelia pertusa

Genomic Location: scaffold_9:4986572...4989857
NR annotation: KAJ7381203.1, hypothetical protein OS493_004804 [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)

No Swiss-Prot hit above the reporting threshold for this gene.

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0011180 (this species only)
Transcription factor family	TF_bZIP · all TF in this species

Pfam domain

No Pfam domain signature was detected for OS493_004804-T1. This gene does have a gene model — the search simply returned no hit.

InterPro

InterPro term	Type	Description	Source
IPR000837 all species →	Family	AP-1 transcription factor	Interproscan
IPR046347 all species →	Homologous_superfamily	Basic-leucine zipper domain superfamily	Interproscan
IPR004827 all species →	Domain	Basic-leucine zipper domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR23351 all species →	FOS TRANSCRIPTION FACTOR-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000978 all species →	Molecular Function	RNA polymerase II cis-regulatory region sequence-specific DNA binding	Interproscan
GO:0000981 all species →	Molecular Function	DNA-binding transcription factor activity, RNA polymerase II-specific	Interproscan
GO:0003677 all species →	Molecular Function	DNA binding	Interproscan
GO:0003700 all species →	Molecular Function	DNA-binding transcription factor activity	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	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_004804-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_004804-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

109TPM > 0

7Conditions

24.4Max TPM

8.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	10.52	18.27
polyp at pH7 6	18	17	7.72	15.87
coral polyp · control treatment	16	16	8.39	17.92
coral polyp · oil and dispersant treatment	16	16	5.74	10.76
coral polyp · oil treatment	16	16	7.04	12.69
coral polyp · dispersant treatment	16	16	7.35	13.06
Polyp	10	10	11.22	24.41

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.27
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.87
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.39
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.42
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.87
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.47
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.03
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.81
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.65
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.53
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.83
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.82
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.88
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.17
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.02
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.93
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.68
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.79
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.87
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.77
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.37
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.30
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.70
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.94
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.62
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.34
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.74
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.89
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.74
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.61
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.40
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.00
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.37
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.12
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.27
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.92
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.64
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.34
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.18
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.30
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.98
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.01
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.00
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.48
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.59
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.86
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.67
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.19
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.18
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.15
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.83
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.76
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.52
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.39
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.87
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.64
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.33
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.31
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.63
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.24
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.93
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.82
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.18
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.98
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.93
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.62
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.60
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.69
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.01
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.95
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.86
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.67
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.54
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.94
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.15
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.21
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.91
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.34
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.02
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.19
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.83
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.48
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.84
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.06
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.24
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.30
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.72
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.00
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.75
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.75
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.20
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.00
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.91
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.35
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.60
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.55
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.33
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.10
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.79
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	24.41
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	17.68
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	16.45
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	11.42
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	10.08
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	9.91
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	7.33
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	6.67
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	5.63
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	2.60

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.