Gene detail

Detailed information of OS493_012572-T1 in Lophelia pertusa

Genomic Location: scaffold_33:654522...660023
NR annotation: KAJ7379824.1, Regulator of microtubule dynamics [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
Q5EAU9	Regulator of microtubule dynamics protein 3 OS=Xenopus laevis OX=8355 GN=rmdn3 PE=2 SV=1
Q0P4W3	Regulator of microtubule dynamics protein 2 OS=Xenopus tropicalis OX=8364 GN=rmdn2 PE=2 SV=1
Q9DCV4	Regulator of microtubule dynamics protein 1 OS=Mus musculus OX=10090 GN=Rmdn1 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001299 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF21033 all species →	RMD1-3	Regulator of microtubule dynamics protein 1-3	Repeat	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR011990 all species →	Homologous_superfamily	Tetratricopeptide-like helical domain superfamily	Interproscan
IPR049039 all species →	Repeat	Regulator of microtubule dynamics protein 1-3, alpha helical repeats	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR16056 all species →	REGULATOR OF MICROTUBULE DYNAMICS PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0005739 all species →	Cellular Component	mitochondrion	Interproscan
GO:0005876 all species →	Cellular Component	spindle microtubule	Interproscan
GO:0008017 all species →	Molecular Function	microtubule binding	Interproscan
GO:0097431 all species →	Cellular Component	mitotic spindle pole	Interproscan
GO:0005515 all species →	Molecular Function	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_012572-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_012572-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

106TPM > 0

7Conditions

30.2Max TPM

4.5Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	17	4.31	9.14
polyp at pH7 6	18	16	4.22	8.11
coral polyp · control treatment	16	16	6.16	30.16
coral polyp · oil and dispersant treatment	16	16	4.95	28.33
coral polyp · oil treatment	16	16	4.18	6.90
coral polyp · dispersant treatment	16	16	3.54	8.54
Polyp	10	9	3.64	5.55

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	-	9.14
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.35
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.25
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.03
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.71
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.69
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.65
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.28
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.13
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.49
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.37
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.20
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.79
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.77
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.40
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.26
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.03
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.11
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.94
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.19
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.12
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.38
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.31
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.19
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.02
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.86
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.65
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.67
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.48
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.20
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.74
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.71
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.42
SRR11359524	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	30.16
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.14
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.76
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.64
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.08
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.87
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.79
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.37
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.32
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.85
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.78
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.71
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.42
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.22
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.05
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.47
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	28.33
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.74
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.66
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.56
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.48
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.42
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.40
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.72
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.12
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.10
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.05
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.80
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.66
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.56
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.84
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.82
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.90
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.55
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.20
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.19
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.64
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.63
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.48
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.43
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.05
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.60
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.29
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.25
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.79
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.72
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.67
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.58
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.54
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.21
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.89
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.04
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.71
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.49
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.91
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.01
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.78
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.76
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.33
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.17
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.98
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.12
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.98
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.66
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	5.55
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	5.34
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	4.79
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	4.67
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	3.84
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	3.75
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	3.42
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	2.78
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	2.22
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.