Gene detail

Detailed information of OS493_010699-T1 in Lophelia pertusa

Genomic Location: scaffold_26:2658335...2672459
NR annotation: KAJ7386293.1, cellular calcium ion homeostasis [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
Q5R8E4	Regulator of microtubule dynamics protein 1 OS=Pongo abelii OX=9601 GN=RMDN1 PE=2 SV=1
Q9DCV4	Regulator of microtubule dynamics protein 1 OS=Mus musculus OX=10090 GN=Rmdn1 PE=1 SV=2
Q32KL4	Regulator of microtubule dynamics protein 1 OS=Bos taurus OX=9913 GN=RMDN1 PE=2 SV=1

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
IPR049039 all species →	Repeat	Regulator of microtubule dynamics protein 1-3, alpha helical repeats	Interproscan
IPR019734 all species →	Repeat	Tetratricopeptide repeat	Interproscan
IPR011990 all species →	Homologous_superfamily	Tetratricopeptide-like helical domain superfamily	Interproscan

PANTHER

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

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
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

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_010699-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_010699-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

267.1Max TPM

64.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	78.03	105.64
polyp at pH7 6	18	18	83.38	146.83
coral polyp · control treatment	16	16	44.98	93.66
coral polyp · oil and dispersant treatment	16	16	42.78	139.37
coral polyp · oil treatment	16	16	47.26	74.94
coral polyp · dispersant treatment	16	16	42.74	118.11
Polyp	10	10	137.92	267.06

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	105.64
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	100.33
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	97.36
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	96.32
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	86.44
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	86.36
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	78.33
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	77.20
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	75.35
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	75.16
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	74.26
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	72.65
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	68.62
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	67.93
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	62.58
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	61.64
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	59.41
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	58.93
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	146.83
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	141.60
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	90.20
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	89.09
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	87.31
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	83.92
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	83.17
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	82.55
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	81.46
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	79.41
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	79.37
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	76.34
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	75.90
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	72.95
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	60.67
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	58.81
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	57.55
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	53.65
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	93.66
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	71.98
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	64.12
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	50.76
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	44.35
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	43.80
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	43.65
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	43.41
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	42.10
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	39.08
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	38.49
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	38.35
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	32.98
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.68
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.63
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.64
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	139.37
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	58.17
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	48.16
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	44.30
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	42.67
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	41.53
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	41.24
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	40.73
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	35.45
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	33.38
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	33.09
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	28.11
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.89
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.12
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.25
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.95
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	74.94
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	61.01
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	59.45
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	53.66
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	51.48
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	49.07
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	46.33
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	45.74
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	43.27
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	42.14
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	42.14
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	39.74
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	38.02
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	37.94
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	37.93
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	33.35
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	118.11
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	89.66
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	72.00
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	56.93
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	43.29
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	38.93
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	37.82
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	33.15
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	31.75
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.33
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.77
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.72
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.74
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.65
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.21
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.84
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	267.06
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	188.40
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	174.82
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	139.65
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	130.07
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	113.14
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	105.19
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	100.83
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	82.66
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	77.35

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.