Gene detail

Detailed information of OS493_009539-T1 in Lophelia pertusa

Genomic Location: scaffold_23:22199...25663
NR annotation: KAJ7363387.1, apoptotic process [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
Q6P132	Tax1-binding protein 1 homolog B OS=Danio rerio OX=7955 GN=tax1bp1b PE=2 SV=3
Q66HA4	Tax1-binding protein 1 homolog OS=Rattus norvegicus OX=10116 GN=Tax1bp1 PE=2 SV=1
Q3UKC1	Tax1-binding protein 1 homolog OS=Mus musculus OX=10090 GN=Tax1bp1 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006848 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF17751 all species →	SKICH	SKICH domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR051002 all species →	Family	Ubiquitin-binding and autophagy-associated domain-containing protein	Interproscan
IPR041611 all species →	Domain	SKICH domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR31915 all species →	SKICH DOMAIN-CONTAINING PROTEIN	Interproscan

Gene Ontology

No Gene Ontology signature was detected for OS493_009539-T1. This gene does have a gene model — the search simply returned no hit.

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_009539-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_009539-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

95TPM > 0

7Conditions

9.7Max TPM

2.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	2.81	5.67
polyp at pH7 6	18	15	2.16	5.94
coral polyp · control treatment	16	14	2.85	8.62
coral polyp · oil and dispersant treatment	16	14	3.45	6.00
coral polyp · oil treatment	16	14	2.33	6.85
coral polyp · dispersant treatment	16	12	4.11	9.74
Polyp	10	8	1.25	4.53

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	-	5.67
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.05
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.75
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.51
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.29
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.96
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.33
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.90
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.65
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.31
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.30
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.99
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.59
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.44
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.27
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.99
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.86
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.70
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.94
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.49
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.33
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.72
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.70
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.57
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.53
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.37
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.80
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.76
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.54
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.35
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.11
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.88
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.75
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.62
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.26
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.30
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.91
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.63
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.48
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.37
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.94
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.17
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.17
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.84
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.81
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.35
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.70
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.00
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.79
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.64
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.00
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.50
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.16
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.06
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.04
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.78
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.68
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.35
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.38
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.24
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.51
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.85
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.44
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.09
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.74
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.67
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.61
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.98
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.62
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.27
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.11
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.96
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.85
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.56
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.50
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.74
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.33
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.97
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.01
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.61
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.55
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.02
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.88
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.60
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.35
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.53
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.18
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	4.53
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	3.31
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	3.22
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	0.56
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	0.31
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.30
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	0.19
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	0.12
SRR23025711	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.