Gene detail

Detailed information of OS493_007425-T1 in Lophelia pertusa

Genomic Location: scaffold_16:2188597...2189636
NR annotation: KAJ7374336.1, hypothetical protein OS493_007425 [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
P23050	p55-v-Fos-transforming protein OS=Avian retrovirus NK24 OX=11875 GN=V-FOS PE=3 SV=1
P11939	Protein c-Fos OS=Gallus gallus OX=9031 GN=FOS PE=1 SV=1
O77628	Protein c-Fos OS=Bos taurus OX=9913 GN=FOS PE=2 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000852 (this species only)
Transcription factor family	TF_bZIP · all TF in this species

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00170 all species →	bZIP_1	bZIP transcription factor	Coiled-coil	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR000837 all species →	Family	AP-1 transcription factor	Interproscan
IPR004827 all species →	Domain	Basic-leucine zipper domain	Interproscan
IPR046347 all species →	Homologous_superfamily	Basic-leucine zipper domain superfamily	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_007425-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_007425-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

99TPM > 0

7Conditions

26.7Max TPM

5.9Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	16	4.76	15.98
polyp at pH7 6	18	16	2.63	7.95
coral polyp · control treatment	16	16	10.25	26.68
coral polyp · oil and dispersant treatment	16	15	6.84	24.70
coral polyp · oil treatment	16	16	7.60	18.98
coral polyp · dispersant treatment	16	15	6.88	24.70
Polyp	10	5	0.80	4.90

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.98
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.65
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.42
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.38
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.54
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.26
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.75
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.53
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.49
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.28
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.44
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.86
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.75
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.46
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.21
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.75
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.95
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.91
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.99
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.67
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.98
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.29
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.68
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.38
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.99
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.82
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.65
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.55
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.87
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.72
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.49
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.42
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.68
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.17
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.27
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.32
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.05
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.35
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.45
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.54
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.27
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.21
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.53
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.30
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.33
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.94
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.00
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.58
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.70
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.39
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.70
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.51
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.08
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.95
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.68
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.95
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.84
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.32
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.24
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.92
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.64
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.42
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.15
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.98
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.66
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.54
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.87
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.94
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.56
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.48
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.18
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.33
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.11
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.50
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.14
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.08
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.34
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.96
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.88
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.70
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.07
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.27
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.56
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.52
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.49
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.33
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.17
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.30
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.67
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.05
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.66
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.57
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.79
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.89
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	4.90
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	1.42
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	0.67
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	0.61
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	0.40
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	0.00

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.