Gene detail

Detailed information of OS493_028871-T1 in Lophelia pertusa

Genomic Location: scaffold_170:179763...182232
NR annotation: KAJ7383325.1, hypothetical protein OS493_028871, partial [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
P14010	4-aminobutyrate aminotransferase OS=Emericella nidulans (strain FGSC A4 / ATCC 38163 / CBS 112.46 / NRRL 194 / M139) OX=227321 GN=gatA PE=3 SV=1
P80147	4-aminobutyrate aminotransferase, mitochondrial OS=Sus scrofa OX=9823 GN=ABAT PE=1 SV=2
P80404	4-aminobutyrate aminotransferase, mitochondrial OS=Homo sapiens OX=9606 GN=ABAT PE=1 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0002109 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00202 all species →	Aminotran_3	Aminotransferase class-III	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR015421 all species →	Homologous_superfamily	Pyridoxal phosphate-dependent transferase, major domain	Interproscan
IPR005814 all species →	Family	Aminotransferase class-III	Interproscan
IPR015424 all species →	Homologous_superfamily	Pyridoxal phosphate-dependent transferase	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR43206 all species →	AMINOTRANSFERASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003867 all species →	Molecular Function	obsolete 4-aminobutyrate transaminase activity	Interproscan
GO:0005739 all species →	Cellular Component	mitochondrion	Interproscan
GO:0009450 all species →	Biological Process	gamma-aminobutyric acid catabolic process	Interproscan
GO:0030170 all species →	Molecular Function	pyridoxal phosphate binding	Interproscan
GO:0008483 all species →	Molecular Function	transaminase 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_028871-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_028871-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

58.6Max TPM

18.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	14.45	26.37
polyp at pH7 6	18	18	17.71	31.51
coral polyp · control treatment	16	16	22.84	34.30
coral polyp · oil and dispersant treatment	16	16	22.98	58.55
coral polyp · oil treatment	16	16	22.29	36.15
coral polyp · dispersant treatment	16	16	19.55	33.25
Polyp	10	10	6.52	10.47

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	-	26.37
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.64
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.35
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.11
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.77
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.64
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.72
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.54
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.87
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.25
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.20
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.07
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.89
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.72
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.67
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.86
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.84
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.67
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	31.51
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.40
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.11
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.07
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.79
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.03
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.19
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.86
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.38
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.85
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.82
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.25
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.58
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.89
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.84
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.34
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.05
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.78
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.30
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.32
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.45
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.19
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.92
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.03
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.32
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.65
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.38
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.07
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.03
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.82
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.46
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.25
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.17
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.08
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	58.55
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	49.21
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	38.50
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.71
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.41
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.55
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.60
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.12
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.09
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.48
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.03
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.83
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.61
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.55
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.32
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.16
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	36.15
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	32.20
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	32.10
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.51
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.06
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.23
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.00
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.14
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.03
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.90
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.24
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.68
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.54
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.57
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.17
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.17
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	33.25
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	29.67
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	28.74
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.16
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.71
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.60
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.66
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.41
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.35
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.49
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.91
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.31
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.79
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.39
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.24
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.15
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	10.47
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	8.82
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	7.24
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	7.22
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	7.13
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	6.34
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	5.54
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	5.29
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	4.55
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	2.58

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.