Gene detail

Detailed information of OS493_023459-T1 in Lophelia pertusa

Genomic Location: scaffold_104:485230...486685
NR annotation: KAJ7384132.1, 2-hydroxyacyl-CoA lyase 1 [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
Q9UJ83	2-hydroxyacyl-CoA lyase 1 OS=Homo sapiens OX=9606 GN=HACL1 PE=1 SV=2
Q9QXE0	2-hydroxyacyl-CoA lyase 1 OS=Mus musculus OX=10090 GN=Hacl1 PE=1 SV=2
Q8CHM7	2-hydroxyacyl-CoA lyase 1 OS=Rattus norvegicus OX=10116 GN=Hacl1 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003527 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF02775 all species →	TPP_enzyme_C	Thiamine pyrophosphate enzyme, C-terminal TPP binding domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR045025 all species →	Family	TPP-binding domain containing protein HACL1-like	Interproscan
IPR029061 all species →	Homologous_superfamily	Thiamin diphosphate-binding fold	Interproscan
IPR011766 all species →	Domain	Thiamine pyrophosphate enzyme, TPP-binding	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR43710 all species →	2-HYDROXYACYL-COA LYASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0001561 all species →	Biological Process	fatty acid alpha-oxidation	Interproscan
GO:0005777 all species →	Cellular Component	peroxisome	Interproscan
GO:0030976 all species →	Molecular Function	thiamine pyrophosphate binding	Interproscan
GO:0003824 all species →	Molecular Function	catalytic activity	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_023459-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_023459-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

61.6Max TPM

30.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	33.20	44.96
polyp at pH7 6	18	18	34.01	50.38
coral polyp · control treatment	16	16	31.35	57.35
coral polyp · oil and dispersant treatment	16	16	23.70	45.14
coral polyp · oil treatment	16	16	35.32	53.27
coral polyp · dispersant treatment	16	16	23.92	61.55
Polyp	10	9	26.89	56.46

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	44.96
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	44.19
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	41.06
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	39.81
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	37.97
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	35.25
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.58
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.22
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.87
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.72
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.19
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.11
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.15
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.75
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.20
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.64
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.28
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.67
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	50.38
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	45.39
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	43.13
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	42.22
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	41.05
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	40.90
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	37.31
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	36.86
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	35.70
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	34.83
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	34.76
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.46
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.02
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.44
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.08
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.58
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.25
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.79
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	57.35
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	49.19
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	42.73
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	42.14
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	38.67
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	35.93
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.44
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.47
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.02
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.03
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.09
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.15
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.05
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.89
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.29
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.08
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	45.14
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	43.23
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	42.67
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	37.70
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	34.59
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	32.55
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.73
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.26
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.76
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.93
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.72
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.53
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.12
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.53
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.58
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.21
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	53.27
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	52.55
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	50.01
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	46.71
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	46.26
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	46.21
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	43.39
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	41.52
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.77
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.92
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.94
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.26
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.89
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.97
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.49
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.96
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	61.55
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	55.59
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	29.58
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	28.34
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	27.36
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	26.63
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	26.33
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.62
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.29
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.91
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.60
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.06
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.98
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.99
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.75
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.08
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	56.46
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	41.33
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	41.29
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	35.38
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	33.40
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	27.58
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	16.01
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	13.20
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	4.27
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.