Gene detail

Detailed information of OS493_018858-T1 in Lophelia pertusa

Genomic Location: scaffold_63:1578405...1582700
NR annotation: KAJ7379062.1, Tubulin--tyrosine ligase-like protein 12 [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)

No Swiss-Prot hit above the reporting threshold for this gene.

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004204 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF03133 all species →	TTL	Tubulin-tyrosine ligase family	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR027749 all species →	Family	Tubulin--tyrosine ligase-like protein 12	Interproscan
IPR004344 all species →	Family	Tubulin-tyrosine ligase/Tubulin polyglutamylase	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR46088 all species →	TUBULIN--TYROSINE LIGASE-LIKE PROTEIN 12	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0036211 all species →	Biological Process	protein modification process	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_018858-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_018858-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

56.1Max TPM

13.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	10.38	17.85
polyp at pH7 6	18	17	12.01	19.74
coral polyp · control treatment	16	16	18.94	56.13
coral polyp · oil and dispersant treatment	16	16	11.95	30.82
coral polyp · oil treatment	16	16	18.05	37.21
coral polyp · dispersant treatment	16	16	9.45	36.19
Polyp	10	10	12.18	21.93

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.85
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.45
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.74
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.53
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.02
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.39
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.36
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.32
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.92
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.52
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.33
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.71
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.47
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.75
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.47
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.20
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.12
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.70
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.74
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.69
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.16
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.51
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.08
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.21
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.92
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.92
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.04
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.96
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.84
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.38
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.99
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.70
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.80
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.20
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.09
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	56.13
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	41.79
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	40.68
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.41
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.34
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.88
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.30
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.20
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.10
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.76
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.05
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.58
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.74
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.26
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.62
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.24
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	30.82
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.59
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.59
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.87
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.97
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.24
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.03
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.74
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.78
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.33
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.31
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.69
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.55
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.21
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.04
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.47
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	37.21
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	36.45
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.91
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.95
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.21
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.79
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.68
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.43
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.97
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.27
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.01
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.42
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.60
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.40
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.49
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.04
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	36.19
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.23
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.43
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.84
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.17
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.18
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.62
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.28
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.92
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.24
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.23
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.94
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.70
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.43
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.29
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.51
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	21.93
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	16.31
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	15.78
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	14.06
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	13.06
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	12.73
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	9.08
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	8.09
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	5.92
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	4.87

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.