Gene detail

Detailed information of OS493_036701-T1 in Lophelia pertusa

Genomic Location: scaffold_380:138458...149921
NR annotation: KAJ7382151.1, alanine--glyoxylate aminotransferase 2 [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
Q64565	Alanine--glyoxylate aminotransferase 2, mitochondrial OS=Rattus norvegicus OX=10116 GN=Agxt2 PE=1 SV=2
Q9BYV1	Alanine--glyoxylate aminotransferase 2, mitochondrial OS=Homo sapiens OX=9606 GN=AGXT2 PE=1 SV=1
Q5RFA3	Alanine--glyoxylate aminotransferase 2, mitochondrial OS=Pongo abelii OX=9601 GN=AGXT2 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001439 (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
IPR015424 all species →	Homologous_superfamily	Pyridoxal phosphate-dependent transferase	Interproscan
IPR015421 all species →	Homologous_superfamily	Pyridoxal phosphate-dependent transferase, major domain	Interproscan
IPR015422 all species →	Homologous_superfamily	Pyridoxal phosphate-dependent transferase, small domain	Interproscan
IPR005814 all species →	Family	Aminotransferase class-III	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR45688 all species →	ALANINE--GLYOXYLATE AMINOTRANSFERASE 2, MITOCHONDRIAL	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005739 all species →	Cellular Component	mitochondrion	Interproscan
GO:0008453 all species →	Molecular Function	alanine-glyoxylate transaminase activity	Interproscan
GO:0009436 all species →	Biological Process	glyoxylate catabolic process	Interproscan
GO:0019481 all species →	Biological Process	L-alanine catabolic process, by transamination	Interproscan
GO:0008483 all species →	Molecular Function	transaminase activity	Interproscan
GO:0030170 all species →	Molecular Function	pyridoxal phosphate binding	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_036701-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_036701-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

84TPM > 0

7Conditions

49.7Max TPM

8.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	14	7.21	16.87
polyp at pH7 6	18	13	7.03	22.95
coral polyp · control treatment	16	12	8.84	43.25
coral polyp · oil and dispersant treatment	16	14	10.50	45.60
coral polyp · oil treatment	16	13	10.82	49.67
coral polyp · dispersant treatment	16	10	7.53	36.61
Polyp	10	8	5.10	17.80

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.87
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.17
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.15
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.32
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.81
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.92
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.43
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.23
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.62
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.88
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.84
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.62
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.50
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.35
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.95
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.24
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.85
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.42
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.31
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.60
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.36
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.95
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.65
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.76
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.00
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.24
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.15
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	43.25
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	38.66
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.11
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.40
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.25
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.16
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.85
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.62
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.32
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.93
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.47
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.42
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	45.60
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	44.29
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	37.59
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.45
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.12
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.02
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.67
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.36
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.73
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.65
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.53
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.40
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.33
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.25
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	49.67
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	41.48
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.30
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.85
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.34
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.43
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.02
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.95
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.81
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.63
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.14
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.27
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.25
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	36.61
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	33.44
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.20
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.87
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.05
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.60
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.73
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.60
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.30
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.13
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	17.80
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	15.37
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	7.48
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	3.81
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	3.54
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	1.69
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	1.06
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	0.30
SRR23025712	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.