Gene detail

Detailed information of OS493_004315-T1 in Lophelia pertusa

Genomic Location: scaffold_8:4975345...4990749
NR annotation: KAJ7387328.1, hypothetical protein OS493_004315 [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
Q3TDK6	Protein rogdi homolog OS=Mus musculus OX=10090 GN=Rogdi PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007074 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF10259 all species →	Rogdi_lz	Rogdi leucine zipper containing protein	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR028241 all species →	Family	RAVE subunit 2/Rogdi	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR13618 all species →	LEUCINE ZIPPER CONTAINING TRANSCRIPTION FACTOR LZF1	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0043291 all species →	Cellular Component	RAVE complex	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
K24628	ROGDI; protein rogdi	-	Signaling proteins	-	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_004315-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

33.1Max TPM

5.9Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	5.21	6.94
polyp at pH7 6	18	17	6.44	11.49
coral polyp · control treatment	16	16	6.95	21.93
coral polyp · oil and dispersant treatment	16	16	6.41	33.07
coral polyp · oil treatment	16	16	6.15	10.12
coral polyp · dispersant treatment	16	16	5.22	12.13
Polyp	10	9	4.86	10.69

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.94
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.81
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.46
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.08
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.79
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.69
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.60
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.45
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.39
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.99
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.98
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.87
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.64
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.44
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.33
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.96
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.83
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.60
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.49
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.46
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.14
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.84
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.81
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.54
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.15
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.01
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.00
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.97
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.97
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.40
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.24
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.95
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.79
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.67
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.51
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.93
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.64
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.30
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.02
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.59
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.47
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.22
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.87
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.82
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.51
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.99
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.77
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.39
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.48
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.18
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.99
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	33.07
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.48
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.59
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.38
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.02
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.12
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.06
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.71
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.53
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.26
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.23
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.54
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.25
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.70
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.97
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.66
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.12
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.44
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.87
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.60
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.33
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.18
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.01
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.97
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.45
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.12
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.39
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.38
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.00
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.82
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.11
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.62
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.13
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.92
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.48
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.25
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.97
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.77
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.43
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.78
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.15
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.92
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.57
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.24
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.86
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.20
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.82
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.98
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	10.69
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	7.23
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	7.05
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	6.24
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	5.74
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	3.82
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	3.23
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	2.99
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	1.59
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.