Gene detail

Detailed information of OS493_001218-T1 in Lophelia pertusa

Genomic Location: scaffold_2:6525659...6529230
NR annotation: KAJ7387870.1, Transmembrane protein 41B [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
A1A5V7	Transmembrane protein 41B OS=Danio rerio OX=7955 GN=tmem41b PE=2 SV=1
Q5U4K5	Transmembrane protein 41B OS=Xenopus laevis OX=8355 GN=tmem41b PE=2 SV=1
Q5BJD5	Transmembrane protein 41B OS=Homo sapiens OX=9606 GN=TMEM41B PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0002179 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF09335 all species →	SNARE_assoc	SNARE associated Golgi protein	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR032816 all species →	Domain	VTT domain	Interproscan
IPR045014 all species →	Family	Transmembrane protein 41A/B	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR43220 all species →	-	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005789 all species →	Cellular Component	endoplasmic reticulum membrane	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_001218-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_001218-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

94.9Max TPM

11.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	13	2.74	10.79
polyp at pH7 6	18	15	3.65	7.84
coral polyp · control treatment	16	16	11.15	30.91
coral polyp · oil and dispersant treatment	16	16	22.45	42.26
coral polyp · oil treatment	16	16	8.73	23.85
coral polyp · dispersant treatment	16	15	25.79	94.93
Polyp	10	8	3.21	5.84

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.79
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.86
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.49
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.19
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.79
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.28
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.23
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.05
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.72
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.60
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.05
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.02
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.19
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.84
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.41
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.40
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.70
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.44
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.39
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.96
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.96
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.82
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.04
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.85
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.62
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.44
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.41
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.41
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
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
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.91
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.91
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.12
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.32
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.93
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.09
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.04
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.62
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.29
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.01
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.00
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.44
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.26
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.06
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.47
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.03
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	42.26
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	36.91
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	34.53
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	32.74
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	28.41
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.34
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.57
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.54
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.58
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.72
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.43
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.40
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.29
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.75
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.86
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.92
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.85
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.97
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.06
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.56
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.99
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.45
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.91
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.69
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.00
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.88
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.19
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.59
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.58
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.85
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.13
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.99
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	94.93
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	59.71
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	40.62
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	38.83
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	30.10
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.76
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.17
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.84
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.33
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.76
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.77
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.58
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.59
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.33
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.39
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	5.84
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	4.86
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	4.43
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	4.42
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	4.07
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	3.61
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	3.45
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	1.47
SRR7746667	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.