Gene detail

Detailed information of XP_068749985.1 in Montipora capricornis

Genomic Location: chr4:46714857...46728673
NR annotation: XP_020613680.1, pyridoxal 5'-phosphate synthase subunit SNZERR-like [Orbicella faveolata]
Species Montipora capricornis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

rna-XM_068893884.1

GTAGTGAGTACAAACAGAGTAAGGAAAATTGTTGTGGCTCAGGGAGAGACAAGTGGAATTTCACAGCCATGTCTAGTATTGTTCCAGCACCGATAATAAACGGCATAGGTAACGAGTTGGAAGTGAGTAATCTATCTTTAGAAGGCAGGAAAGTAGAACAAGCCATCAAAGATGTTGCATCATCACACAAAACAGGAACTTTCAAGGTGAAAGCAGGACTGGCTCAAATGGCAAAAGGTGGAATTATAATGGATGTCACAACTGCAGAACAAGCGCGGGTGGCTGAGAAGGCTGGGGCCTGTGCTGTGATGTCATTGGAGAGAGTTCCCGCGGATATCCGTAAACAAGGAGGTGTAGCAAGAATGACAGATCCCAAGagaacaaaagagatcatGAATGCTGTCACTATACCTGTGATGGCAAAGGCCAGAATTGGTCATTTTGCCGAGGCACAGATCCTTGAGGCGATTGGTGTGGACATGATTGATGAATCAGAAGTGTTGACTCCAGCTGATGAGGCAAACCACATTGATAAACACAAGTTTACAGTTCCCTTTGTTTGTGGAGCAAGAGATCTTGGAGAAGCTCTAAGAAGAATTGCGGAAGGAGCAGCAATGATAAGAACAAAAGGACAGGCAGGGACAGgtgatgttgcTGAAGCCGTTCGGCATGCAAGAACAATACGCAATCAGATTCGCCATGCTCAATCACTGGACAAGGCCGAACTGTATACTTATGCCAAGGAGTTAAGAGTGCCCTTTGAGCTCCTTCAGAGGACAGCTGAGATGGGTAGATTGCCTGTTGTTAACTTTGCTGCTGGAGGTCTTGCCACCCCTGCTGATGTGGCACTTCTGATGCAGCTTGGCGTAGATGGTGTCTTTGTGGGATCAGGAATTTTTAAGAGTGACAATCCTGAGAAGAGGGCTTGGGCAATGGCACAAGCTGTGACTCATTGCAACAATCCCAAGAAACTTGCCGAACTTAGTGAGGACTTGGGGGAAGCTATGTTTGGAACAccagttagtgatgtcagatgCAAGTGATGCAGTGCACTAGACTCAACTAAGTACTACTTTGAAATTGAAAGATGACCGTTTCTCTCATAAACTGTCACAATATTGCTTAACACATGGGTCATCAACAATCCATCTACACTAGTATTTACTTAGAACTGCATCAATTTTATACTTTCAATTCGTCTAGAAATGTTTGTTGTGTAACTGTAGAGGGGAAATTCAATGTAAAAGTAGAAATTTTTCCAGGAAGAATTGGGGAACAATTTGGGTCCAAGAAGGTATCCCTtgtgaaatattgtttttttgcaattttaataCCAAGTCTGTGTGCAAATCTGTCTTTGGACACTTCAGTATGAATTTAAACACAAAATGGGTTGAAAAGGTTGTGATTTATAGACTGCTGGCAGCCCTTTTCTGGATAGTTGAGAAGGAGTGAAAAAATCTGAAAGTGCACAGCACAGCAAGACTGGAGCAAtaggagaaaaagaaagagaagagactGGAACAAAGCCCCCTGTGCttgtttttggctttttcaTTCACTTATCATTTATCCAGAAGCTGAAGTATTTGCGGTTCATAGTACTTAGCCTTAAAAGGTATACTGTGAGAATCATCGACATTGGCTGGTGTAAGtttaccttattacatgaaattttggcGACACGTTAATTTAGCGATTTTGAAAAATCAGGATTTAGCGACACCTTCATTTAGCGATTTTTCGTAAATTTTGGAACATAAGTCACTTAATTTTTGCGATTTTGTAAGCTGAAACTTTCTGGCGAATTAAGGTATTCAAAACTTTTGCGACGACAATAGaacattaaaattattaatCGTTTGTGTCATGATGTAGTTACTTGGCGATTCatatcacaagtgaccacatcgtgagacaaacgataataccttgattattattattgtactttaccACGATGAACAAACACAATTTTTCTTACgaaatagaaaatttatttGATAAAATCATAAACGTCAATgggttcattaaaaaaaaaatcgtaaaaaaaatcatacaacGTTATAAAacttaacaaaacaaataaaactgcAACTATAATGTCATATCTTCAGCTTCATGCTGTCCTCACTCATATTTACATTATCACACAGAGTCAATGCTCCTTTTACGAGTACCTAGCCATTAACTTTCTAAAAACACCGATCAAGACAGGTCGATTTCTTCAAATCGATCAACAGGTGGTAGTGGTTTGTCGCTGTTGGCAATTTCCTTGACTCCCGCTTTCTCCCATCCCTTGAGGATACATCTCCTTCCTGGAGACTGGTGTAAGCCGACTAACAGTTTCTCTTATTGCAGCAACTGCGTACCAGTCGTGCGGATTATTTTCCTGGTGAATTGTGTCAAGCTTTTCATTTAGTCTAGGATTCCACAGCTCTTTTTAAACGTGGAAACCCCCTAGTCCACATGGGAAAGCGAGATTTAATGCGAGCGAAGAATCCATTTCAGTTGTGAAGCTGAAATGTATTCAGTAGACATCCGATACAAGTCAAAATCGACCGTAAATAGCGTGATCTTGTGAAACGGACCAGATGGCGGAATTTCCCATTGGAGTCACTTTAATTTAGCGACGATTTAAAGTTAGCGACACttaattttggtacattttAATTTAGCGATATTTTGTGTCgccaaaatttcatgtaataaggtacctTGCACCGTAAATTATCTGTTAAATGAATATAACAGTCATGACATAACCTCTCtcatagataaataaataatgaactttgtttaa

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q8WPW2	Pyridoxal 5'-phosphate synthase subunit SNZERR OS=Suberites domuncula OX=55567 GN=SNZERR PE=2 SV=2
O14027	Probable pyridoxal 5'-phosphate synthase subunit PDX1 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) OX=284812 GN=snz1 PE=1 SV=1
Q54J47	Probable pyridoxal 5'-phosphate synthase subunit pdx1 OS=Dictyostelium discoideum OX=44689 GN=pdx1 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006083 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01680 all species →	SOR_SNZ	SOR/SNZ family	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR013785 all species →	Homologous_superfamily	Aldolase-type TIM barrel	Interproscan
IPR033755 all species →	Domain	PdxS/SNZ N-terminal domain	Interproscan
IPR001852 all species →	Family	Pyridoxal 5'-phosphate synthase subunit PdxS/SNZ	Interproscan
IPR011060 all species →	Homologous_superfamily	Ribulose-phosphate binding barrel	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR31829 all species →	PYRIDOXAL 5'-PHOSPHATE SYNTHASE SUBUNIT SNZ1-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0042819 all species →	Biological Process	vitamin B6 biosynthetic process	Interproscan
GO:0042823 all species →	Biological Process	pyridoxal phosphate biosynthetic process	Interproscan
GO:0006520 all species →	Biological Process	amino acid metabolic process	Interproscan
GO:0008615 all species →	Biological Process	pyridoxine biosynthetic process	Interproscan
GO:0016843 all species →	Molecular Function	amine-lyase 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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K06215	pdxS, pdx1; pyridoxal 5'-phosphate synthase pdxS subunit	EC:4.3.3.6	Vitamin B6 metabolism	ko00750	deepkoala

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.

Expression pattern (RNA-seq)

Transcript abundance of XP_068749985.1 across 36 RNA-seq samples of Montipora capricornis. This gene has no row in the species' RNA-seq expression matrix, so every value below is shown as zero — the matrix simply does not cover this transcript. 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.

36Samples

0TPM > 0

1Conditions

0.0Max TPM

0.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM	Mean, relative to max
Polyps	36	0	0.00	0.00

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study
SRR12710846	Polyps	Polyps	OA3 day3	not recorded	SRP199550
SRR12710847	Polyps	Polyps	OA3 day3	not recorded	SRP199550
SRR12710848	Polyps	Polyps	OA3 day3	not recorded	SRP199550
SRR12710855	Polyps	Polyps	OA3 day9	not recorded	SRP199550
SRR12710857	Polyps	Polyps	OA3 day9	not recorded	SRP199550
SRR12710858	Polyps	Polyps	OA3 day9	not recorded	SRP199550
SRR12786896	Polyps	Polyps	OA3 day0	not recorded	SRP199550
SRR12786897	Polyps	Polyps	OA3 day0	not recorded	SRP199550
SRR12786898	Polyps	Polyps	OA3 day0	not recorded	SRP199550
SRR12807381	Polyps	Polyps	OA3 day0	not recorded	SRP199550
SRR12849113	Polyps	Polyps	OA3 day0	not recorded	SRP199550
SRR12904781	Polyps	Polyps	not recorded	not recorded	SRP199550
SRR12904782	Polyps	Polyps	not recorded	not recorded	SRP199550
SRR12904783	Polyps	Polyps	not recorded	not recorded	SRP199550
SRR12927880	Polyps	Polyps	E3 day0	not recorded	SRP199550
SRR12959182	Polyps	Polyps	E3 day0	not recorded	SRP199550
SRR12959183	Polyps	Polyps	E3 day0	not recorded	SRP199550
SRR12959184	Polyps	Polyps	E3 day0	not recorded	SRP199550
SRR12959188	Polyps	Polyps	E3 day21	not recorded	SRP199550
SRR12959189	Polyps	Polyps	E3 day21	not recorded	SRP199550
SRR12959190	Polyps	Polyps	E3 day21	not recorded	SRP199550
SRR12959201	Polyps	Polyps	E3 day15	not recorded	SRP199550
SRR12959202	Polyps	Polyps	E3 day15	not recorded	SRP199550
SRR12959203	Polyps	Polyps	E3 day15	not recorded	SRP199550
SRR12959214	Polyps	Polyps	E3 day9	not recorded	SRP199550
SRR12959215	Polyps	Polyps	E3 day9	not recorded	SRP199550
SRR12959216	Polyps	Polyps	E3 day9	not recorded	SRP199550
SRR12959227	Polyps	Polyps	E3 day3	not recorded	SRP199550
SRR12959229	Polyps	Polyps	E3 day3	not recorded	SRP199550
SRR12959230	Polyps	Polyps	E3 day3	not recorded	SRP199550
SRR12963484	Polyps	Polyps	E3 day0	not recorded	SRP199550
SRR27940191	Polyps	Polyps	not recorded	not recorded	SRP199550
SRR27940192	Polyps	Polyps	not recorded	not recorded	SRP199550
SRR27940193	Polyps	Polyps	not recorded	not recorded	SRP199550
SRR9129316	Polyps	Polyps	not recorded	not recorded	SRP199550
SRR9613519	Polyps	Polyps	not recorded	not recorded	SRP199550

Source: CnidoSite RNA-seq expression matrices (MCAPR_TPM, StringTie quantification over 36 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.