Gene detail

Detailed information of OS493_004140-T1 in Lophelia pertusa

Genomic Location: scaffold_8:2724148...2732241
NR annotation: KAJ7387174.1, coiled-coil domain containing protein 64 [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
Q8SWR2	Bicaudal D-related protein homolog OS=Drosophila melanogaster OX=7227 GN=BicDR PE=1 SV=1
P0CF95	BICD family-like cargo adapter 1 OS=Danio rerio OX=7955 GN=bicdl1 PE=2 SV=1
Q6GLX3	BICD family-like cargo adapter 2 OS=Xenopus laevis OX=8355 GN=bicdl2 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001390 (this species only) · gene tree & orthology

Pfam domain

No Pfam domain signature was recorded for OS493_004140-T1 in Lophelia pertusa.

InterPro

InterPro term	Type	Description	Source
IPR051149 all species →	Family	Spindly/BICDR Dynein Motor Adapter	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR32123 all species →	BICD FAMILY-LIKE CARGO ADAPTER	Interproscan

Gene Ontology

No Gene Ontology signature was recorded for OS493_004140-T1 in Lophelia pertusa.

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_004140-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_004140-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

109TPM > 0

7Conditions

203.2Max TPM

38.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	11.63	26.58
polyp at pH7 6	18	18	11.20	20.13
coral polyp · control treatment	16	16	32.91	59.88
coral polyp · oil and dispersant treatment	16	16	50.74	90.02
coral polyp · oil treatment	16	16	20.97	32.57
coral polyp · dispersant treatment	16	16	125.12	203.21
Polyp	10	9	11.36	22.40

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	-	26.58
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.36
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.62
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.50
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.94
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.14
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.77
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.55
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.42
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.59
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.54
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.10
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.84
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.55
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.01
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.97
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.87
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.95
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.13
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.07
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.06
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.56
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.50
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.90
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.51
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.11
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.26
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.17
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.04
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.28
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.14
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.88
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.38
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.94
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.21
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.43
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	59.88
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	51.41
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	44.58
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	44.37
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	38.90
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	38.27
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	38.20
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.65
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.38
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.33
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.78
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.47
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.51
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.36
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.89
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.61
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	90.02
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	87.12
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	82.21
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	68.12
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	61.53
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	56.00
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	54.13
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	52.24
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	47.35
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	41.18
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	39.11
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	36.86
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	28.90
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	28.05
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.64
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.35
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	32.57
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.20
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.05
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.02
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.75
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.51
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.28
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.92
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.89
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.64
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.80
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.51
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.69
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.42
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.70
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.54
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	203.21
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	199.52
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	193.59
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	186.87
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	184.48
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	156.85
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	153.55
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	134.63
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	124.91
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	118.84
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	94.04
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	80.05
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	69.73
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	65.83
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.29
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.54
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	22.40
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	21.90
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	15.38
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	12.43
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	11.94
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	10.50
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	7.28
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	6.34
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	5.42
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.