Gene detail

Detailed information of OS493_029998-T1 in Lophelia pertusa

Genomic Location: scaffold_188:22704...26065
NR annotation: KAJ7383200.1, DAZ-associated protein 1 [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
G5EFS2	RNA-binding protein Musashi homolog 1 OS=Caenorhabditis elegans OX=6239 GN=msi-1 PE=1 SV=1
Q96DH6	RNA-binding protein Musashi homolog 2 OS=Homo sapiens OX=9606 GN=MSI2 PE=1 SV=1
Q920Q6	RNA-binding protein Musashi homolog 2 OS=Mus musculus OX=10090 GN=Msi2 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000368 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00076 all species →	RRM_1	RNA recognition motif	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR000504 all species →	Domain	RNA recognition motif domain	Interproscan
IPR012677 all species →	Homologous_superfamily	Nucleotide-binding alpha-beta plait domain superfamily	Interproscan
IPR035979 all species →	Homologous_superfamily	RNA-binding domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR48032 all species →	RNA-BINDING PROTEIN MUSASHI HOMOLOG RBP6	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003723 all species →	Molecular Function	RNA binding	Interproscan
GO:0003676 all species →	Molecular Function	nucleic acid binding	Interproscan
GO:0003729 all species →	Molecular Function	mRNA binding	Interproscan
GO:0006417 all species →	Biological Process	regulation of translation	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
K14411	MSI; RNA-binding protein Musashi	-	Messenger RNA biogenesis	ko03019	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_029998-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

155.9Max TPM

54.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	33.09	43.21
polyp at pH7 6	18	18	39.32	57.88
coral polyp · control treatment	16	16	72.42	141.83
coral polyp · oil and dispersant treatment	16	16	74.22	123.42
coral polyp · oil treatment	16	16	59.51	136.66
coral polyp · dispersant treatment	16	16	66.43	155.89
Polyp	10	10	34.30	52.24

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	-	43.21
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	42.11
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	40.90
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	40.07
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	39.54
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	37.63
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	36.32
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	33.76
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	33.50
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.11
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	31.38
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.07
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.87
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.50
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.25
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.18
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.92
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.29
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	57.88
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	55.84
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	52.21
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	50.62
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	46.87
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	45.67
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	42.34
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	38.38
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	37.90
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	37.25
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	37.20
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	35.79
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	31.46
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.62
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.39
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.68
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.21
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.51
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	141.83
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	106.56
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	105.65
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	100.93
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	98.66
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	93.70
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	74.15
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	71.23
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	69.17
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	61.93
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	48.82
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	44.18
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	40.23
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	36.98
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.25
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.49
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	123.42
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	100.73
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	97.32
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	93.33
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	91.89
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	90.61
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	86.45
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	75.33
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	73.42
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	57.31
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	56.83
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	53.25
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	51.76
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	50.78
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	46.02
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	39.05
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	136.66
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	94.48
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	78.71
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	76.80
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	70.85
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	64.61
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	53.74
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	51.47
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	51.25
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	50.89
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	47.98
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	42.99
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	41.26
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	36.73
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.34
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.42
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	155.89
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	95.89
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	86.78
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	77.80
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	70.89
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	70.62
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	69.09
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	63.51
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	63.00
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	62.99
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	62.00
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	57.80
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	57.59
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	54.29
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.72
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.07
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	52.24
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	51.78
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	45.22
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	37.48
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	34.22
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	31.35
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	28.67
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	26.87
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	22.46
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	12.66

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.