Gene detail

Detailed information of OS493_036697-T1 in Lophelia pertusa

Genomic Location: scaffold_380:79772...94317
NR annotation: KAJ7382147.1, 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
Q17QF0	Alanine--glyoxylate aminotransferase 2, mitochondrial OS=Bos taurus OX=9913 GN=AGXT2 PE=2 SV=1
Q9BYV1	Alanine--glyoxylate aminotransferase 2, mitochondrial OS=Homo sapiens OX=9606 GN=AGXT2 PE=1 SV=1
Q3UEG6	Alanine--glyoxylate aminotransferase 2, mitochondrial OS=Mus musculus OX=10090 GN=Agxt2 PE=1 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
IPR005814 all species →	Family	Aminotransferase class-III	Interproscan
IPR015424 all species →	Homologous_superfamily	Pyridoxal phosphate-dependent transferase	Interproscan
IPR049704 all species →	Conserved_site	Aminotransferases class-III pyridoxal-phosphate attachment site	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

PANTHER

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

Gene Ontology

GO term	Category	Description	Source
GO:0008483 all species →	Molecular Function	transaminase activity	Interproscan
GO:0030170 all species →	Molecular Function	pyridoxal phosphate binding	Interproscan
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

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
K00827	AGXT2; alanine-glyoxylate transaminase / (R)-3-amino-2-methylpropionate-pyruvate transaminase	EC:2.6.1.44 EC:2.6.1.40	Amino acid related enzymes	ko01007	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_036697-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

349.7Max TPM

139.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	197.09	278.02
polyp at pH7 6	18	18	192.01	349.68
coral polyp · control treatment	16	16	126.32	196.03
coral polyp · oil and dispersant treatment	16	16	97.54	188.02
coral polyp · oil treatment	16	16	145.01	269.60
coral polyp · dispersant treatment	16	16	81.25	155.15
Polyp	10	10	116.60	267.37

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	-	278.02
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	275.29
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	271.59
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	271.45
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	234.57
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	228.25
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	193.25
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	190.32
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	188.86
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	186.25
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	183.59
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	181.48
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	170.10
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	167.85
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	135.27
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	135.07
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	133.58
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	122.85
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	349.68
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	346.06
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	254.62
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	245.45
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	200.13
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	195.46
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	193.58
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	193.51
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	171.79
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	169.00
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	168.70
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	164.97
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	163.24
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	152.61
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	133.63
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	129.49
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	115.06
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	109.20
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	196.03
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	184.91
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	170.25
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	169.93
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	168.48
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	158.57
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	147.27
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	143.04
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	124.58
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	118.45
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	101.79
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	99.93
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	71.08
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	61.68
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	59.41
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	45.71
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	188.02
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	177.30
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	157.50
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	116.47
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	113.04
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	112.17
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	103.63
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	101.48
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	86.22
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	80.74
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	77.48
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	63.20
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	54.57
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	47.76
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	41.68
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	39.36
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	269.60
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	226.01
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	171.13
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	169.86
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	167.40
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	158.67
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	151.35
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	149.85
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	141.46
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	136.70
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	126.13
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	116.16
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	98.99
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	90.67
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	82.18
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	63.98
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	155.15
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	134.67
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	105.55
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	91.66
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	89.95
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	87.20
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	86.79
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	74.46
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	73.40
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	71.42
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	69.55
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	62.91
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	60.92
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	51.37
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	43.67
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	41.39
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	267.37
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	217.67
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	205.18
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	123.35
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	103.61
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	74.18
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	70.20
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	56.47
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	26.24
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	21.77

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.