Gene detail

Detailed information of OS493_014216-T1 in Lophelia pertusa

Genomic Location: scaffold_40:820579...828848
NR annotation: KAJ7373069.1, tubulin-glutamic acid ligase [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
Q99MS8	Tubulin polyglutamylase complex subunit 1 OS=Mus musculus OX=10090 GN=Tpgs1 PE=1 SV=1
Q6ZTW0	Tubulin polyglutamylase complex subunit 1 OS=Homo sapiens OX=9606 GN=TPGS1 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006464 (this species only)

Pfam domain

No Pfam domain signature was detected for OS493_014216-T1. This gene does have a gene model — the search simply returned no hit.

InterPro

InterPro term	Type	Description	Source
IPR039235 all species →	Family	Tubulin polyglutamylase complex subunit 1	Interproscan
IPR047502 all species →	Domain	Tubulin polyglutamylase complex subunit 1, dimerization/docking domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR31932 all species →	TUBULIN POLYGLUTAMYLASE COMPLEX SUBUNIT 1	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0008017 all species →	Molecular Function	microtubule binding	Interproscan
GO:0018095 all species →	Biological Process	protein polyglutamylation	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
K16581	TPGS1; tubulin polyglutamylase complex subunit 1	-	Cytoskeleton proteins	ko04812	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_014216-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

27.3Max TPM

8.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	8.12	12.03
polyp at pH7 6	18	18	8.99	12.09
coral polyp · control treatment	16	16	10.07	27.13
coral polyp · oil and dispersant treatment	16	16	7.93	27.29
coral polyp · oil treatment	16	16	8.70	12.86
coral polyp · dispersant treatment	16	16	6.10	9.93
Polyp	10	10	8.64	14.04

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.03
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.60
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.12
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.01
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.60
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.61
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.55
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.46
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.39
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.12
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.49
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.69
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.65
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.63
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.48
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.31
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.06
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.34
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.09
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.95
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.59
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.52
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.58
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.49
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.25
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.13
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.08
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.94
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.83
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.70
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.98
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.90
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.53
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.01
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.71
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.48
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.13
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.20
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.23
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.10
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.67
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.39
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.56
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.47
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.23
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.15
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.99
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.26
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.18
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.99
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.98
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.54
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.29
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.10
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.48
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.26
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.72
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.65
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.61
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.56
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.21
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.70
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.26
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.90
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.77
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.66
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.48
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.22
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.86
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.42
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.72
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.54
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.41
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.90
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.55
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.02
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.95
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.76
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.65
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.65
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.33
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.73
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.57
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.21
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.93
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.83
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.53
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.49
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.31
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.94
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.96
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.74
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.09
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.61
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.50
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.48
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.48
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.28
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.59
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.83
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	14.04
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	10.44
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	9.84
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	8.98
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	8.96
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	8.62
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	7.19
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	6.30
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	6.13
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	5.87

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.