Gene detail

Detailed information of OS493_015005-T1 in Lophelia pertusa

Genomic Location: scaffold_43:2008155...2016016
NR annotation: KAJ7392059.1, Tetratricopeptide repeat protein 25 [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
Q32NU8	Outer dynein arm-docking complex subunit 4 OS=Xenopus laevis OX=8355 GN=odad4 PE=2 SV=1
Q7ZU45	Outer dynein arm-docking complex subunit 4 OS=Danio rerio OX=7955 GN=odad4 PE=2 SV=2
Q9D4B2	Outer dynein arm-docking complex subunit 4 OS=Mus musculus OX=10090 GN=Odad4 PE=1 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007031 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF13432 all species →	TPR_16	Tetratricopeptide repeat	Repeat	Interproscan
PF00515 all species →	TPR_1	Tetratricopeptide repeat	Repeat	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR019734 all species →	Repeat	Tetratricopeptide repeat	Interproscan
IPR011990 all species →	Homologous_superfamily	Tetratricopeptide-like helical domain superfamily	Interproscan
IPR040111 all species →	Family	Outer dynein arm-docking complex subunit 4	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR23040 all species →	UNCHARACTERIZED	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

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_015005-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_015005-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

104.3Max TPM

19.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	10.43	14.52
polyp at pH7 6	18	18	9.38	12.52
coral polyp · control treatment	16	16	28.50	104.28
coral polyp · oil and dispersant treatment	16	16	27.83	81.35
coral polyp · oil treatment	16	16	20.60	33.13
coral polyp · dispersant treatment	16	16	25.38	46.30
Polyp	10	10	9.36	14.41

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.52
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.43
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.48
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.26
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.99
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.91
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.57
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.32
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.44
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.84
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.89
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.83
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.78
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.46
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.14
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.47
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.75
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.67
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.52
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.37
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.91
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.64
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.59
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.00
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.77
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.55
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.90
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.77
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.28
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.21
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.15
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.02
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.82
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.77
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.06
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.45
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	104.28
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	52.06
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.31
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.24
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.87
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.49
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.90
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.26
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.08
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.06
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.25
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.89
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.31
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.59
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.79
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.68
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	81.35
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	37.43
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	34.92
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	32.17
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	31.40
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	30.58
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	29.61
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	28.42
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	28.31
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.03
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.87
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.87
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.68
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.83
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.66
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.10
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	33.13
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.25
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.18
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.46
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.33
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.18
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.76
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.58
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.42
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.29
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.89
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.54
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.95
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.14
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.15
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.27
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	46.30
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	41.35
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	37.12
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	31.45
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	30.72
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	30.64
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.72
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.72
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.04
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.08
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.81
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.94
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.57
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.74
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.34
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.59
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	14.41
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	13.55
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	12.93
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	12.55
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	8.65
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	8.11
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	7.98
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	7.16
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	4.82
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	3.43

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.