Gene detail

Detailed information of RMX47239.1 in Pocillopora damicornis

Genomic Location: SczhEnG_2459:227163...240179
NR annotation: no NCBI-NR hit recorded
Species abbreviation PDAMI · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

pdam_00012924

ATGGCGGTCCACGAAGCGTGTTCCCAGATGCGTTATTTTTGTATAGCAATTACCTTACTTTTGGTATCGATATCTGTTCATATAGATGCACATTCTCCGATTGATCCAAGTATTGTGAGGAAGCCAAACTGGCAAGATCGTCTTATTACTTGGTGGATGTCAGTGAGAGCGCCCATAGGAACTCTGATCCTCGGGGGATTAGGTTTGACTTGGTTGATAATCAAGATCACAGGCAAAGAAAAACACAGGGATGAATATTTACGTTGGAAAGCCAGGCAGGAGAAGGAAAATAAAAAAGTTTTGAAATCTCCAACTGATGAGACAGAAACTACAGTGTCAAAGGATTTGAAAATATTCTTTGGAACACAGACTGGAAAGGCTCAGAATCTTGCAGAGTTGCTACAGTCTGAAGCACAAGAAAGTGGGTTGAGAGCTGAACTTGTGGATTTAAAGAATTATGAACCAGAGGACAATCTTTCTGAAGAGACAGCAACTTGTGTATTTATTGTTAGCACCTATGTGGATGGAAAGCCTCCAGAAAGTGTTCAGTGGTTTTACAAATGGCTAGAGGAGGCTGCCAATGATTTTCGTGTGCAGAAATCCCTCCTGCAAGGATTAAACTATGCTGTGTTTGGTCTTGGTAATTCACTCTATGAAGACAAGTTTAACTTGGTTGGAAAAAGAGTTGATAAATGGCTGGAGTTGCTTTGCGCAAAACGTGTCTTTCCTTTTGGAATGGGAGATGAAAATGTAGCCAACAGCAAACATGGAGGCACAGAGGAGGATTTCAAATTCTGGAGAACAGATTTCTTGTCTTTCATAAAAGGCACAAGTGGAAAATCAAAGGGAAATGTATGTCAGTGTTCCAGTGGATCAAACTCTCAAGTTGATGAAACCTGTTGTCAGAGTGATGAAGGTCCTCAGGAAAATGAGGGTCAAGATGATGAGGTACTGTATGAAAGCACAAGCGAGGAGTCTGCAGGTGAAGGTGAAGAAGAGAGCAATTCTGGCCTGGTAGATTTAGAAGACCTGGGTCCTATGATGGGTAAAATGAAAAAAGATAAGGAAGAAAAAGGAGTCACGGGCATGAAAAGCTCAAAGAGAGTTGTAGGTAGCAAGAAAAAGGTTAAGACAGAACCCAAAGAGATGATAACACCCGCACTGGAGAAAGCCCTGACAAAACAAGGTTACCGTCTGATCGGTTCTCACTCCGGAGTCAAACTATGCAGATGGACAAAGTCAATGTTAAGAGGTCGTGGTGGTTGCTACAAACATACCTTTTATGGTATAGAGAGTCATCGTTGTATGGAAACAACACCAAGCTTAGCTTGTGCTAATAAGTGCGTGTTTTGTTGGAGGCATCATACAAATCCTGTTGGAACAGAATGGAAGTGGAAGATGGACGATCCTGACACGATTGTGAATGGCGCCATGGAGAATCACCGCAACATGATCAAACAGTTCAGAGGTGTTCCTGGTGTAAAACCTGAGAGATTCGAAGAAGGAATGAAGATAAGACATTGTGCTCTTTCTCTTGTTGGTGAACCTATCATGTATCCAAGAATAAACGAACTCGTCAGGATTCTGCACGGACATGATATCTCATCTTTTCTCGTGACGAACGCACAGTTTCCTGACGCTATAAGGAACCTCATTCCAGTGACTCAGTTGTATGTCAGTGTGGATGCCAGCACTAAAGAAAGCCTCAAGAAAATCGACCGACCCTTGTTTAGAGATTTCTGGCCTCGGTTTTTGGACAGCCTTAAGGCTCTGTCAGAAAAGGGTCAGAGAACTGTGTACCGTCTCACACTGGTTAAGTCCTGGAACAATGAAGAAATCAAAAACTATGCCGACTTGGTATCTATTGGCAAACCAGACTTCATTGAAGTTAAGGGTGTAACCTATTGTGGGGAATCTAAAGCATCCACCCTCACGATGCAGAATGTACCATGGCATGAAGAGGTCATTGGGTTTGTTCAGAAGCTAACAGATTTACTACCTGACTATGAGATCGCCTGTGAACATGAACATTCCAACTGTCTTCTTATTTGCCACAAGAAGTTTAAGAAAGAAGATGAATGGTACACATGGATTGATTACCCCACTTTCCACCGTCTGATGCAGCGTTATGAAGAGAGCAACGGAACCGAAAACTTTACAGCACTGGACTACATGGCTAAGACACCTGAATGGGCCTTGATGGGCCATGAACAGAGAGGGTTCGATCCAGAGGAAACTCGGTGGCATCGCAAGAAGAAGAAGGACATTAGTGGCTGTTAA

Transcript

rna-pdam_00012924

AAAAACATGGCGGTCCACGAAGCGTGTTCCCAGATGCGTTATTTTTGTATAGCAATTACCTTACTTTTGGTATCGATATCTGTTCATATAGATGCACATTCTCCGATTGATCCAAGTATTGTGAGGAAGCCAAACTGGCAAGATCGTCTTATTACTTGGTGGATGTCAGTGAGAGCGCCCATAGGAACTCTGATCCTCGGGGGATTAGGTTTGACTTGGTTGATAATCAAGATCAcaggcaaagaaaaacacaggGATGAATATTTACGTTGGAAAGCCAGGCAGGAGAAggaaaataaaaaagttttgaaatctcCAACTGATGAGACAGAAACTACAGTGTCAaaggatttgaaaatattctttggAACACAGACTGGAAAGGCTCAGaATCTTGCAGAGTTGCTACAGTCTGAAGCACAAGAAAGTGGGTTGAGAGCTGAACTTGTGGATTTAAAGAATTATGAACCAGAGGACAATCTTTCTGAAGAGACAGCAACTTGTGTATTTATTGTTAGCACCTATGTGGATGGAAAGCCTCCAGAAAGTGTTCAGTGGTTTTACAAATGGCTAGAGGAGGCTGCCAATGATTTTCGTGTGCAGAAATCCCTCCTGCAAGGATTAAACTATGCTGTGTTTGGTCTTGGTAATTCACTCTATGAAGACAAGTTTAACTTGGTTGGAAAAAGAGTTGATAAATGGCTGGAGTTGCTTTGCGCAAAACGTGTCTTTCCTTTTGGAATGGGAGATGAAAATGTAGCCAACAGCAAACATGGAGGCACAGAGGAGGATTTCAAATTCTGGAGAACAGATTTCTTGTCTTTCATAAAAGGCACAAGTGGAAAATCAAAGGGAAATGTATGTCAGTGTTCCAGTGGATCAAACTCTCAAGTTGATGAAACCTGTTGTCAGAGTGATGAAGGTCCTCAGGAAAATGAGGGTCAAGATGATGAGGTACTGTATGAAAGCACAAGCGAGGAGTCTGCAGGTGAAGGTGAAGAAGAGAGCAATTCTGGCCTGGTAGATTTAGAAGACCTGGGTCCTATGATgggtaaaatgaaaaaagataagGAAGAAAAAGGAGTCACGGGCATGAAAAGCTCAAAGAGAGTTGTAGGTAGCAAGAAAAAGGTTAAGACAGAACCCAAAGAGATGATAACACCCGCACTGGAGAAAGCCCTGACAAAACAAGGTTACCGTCTGATCGGTTCTCACTCCGGAGTCAAACTATGCAGATGGACAAAGTCAATGTTAAGAGGTCGTGGTGGTTGCTACAAACATACCTTTTATGGTATAGAGAGTCATCGTTGTATGGAAACAACACCAAGCTTAGCTTGTGCTAATAAGTGCGTGTTTTGTTGGAGGCATCATACAAATCCTGTTGGAACAGAATGGAAGTGGAAGATGGACGATCCTGACACGATTGTGAATGGCGCCATGGAGAATCACCGCAACATGATCAAACAGTTCAGAGGTGTTCCTGGTGTAAAACCTGAGAGATTCGAAGAAGGAATGAAGATAAGACATTGTGCTCTTTCTCTTGTTGGTGAACCTATCATGTATCCAAGAATAAACGAACTCGTCAGGATTCTGCACGGACATGATATCTCATCTTTTCTCGTGACGAACGCACAGTTTCCTGACGCTATAAGgaACCTCATTCCAGTGACTCAGTTGTATGTCAGTGTGGATGCCAGCACTAAAGAAAGCCTCAAGAAAATCGACCGACCCTTGTTTAGAGATTTCTGGCCTCGGTTTTTGGACAGCCTTAAGGCTCTGTCAGAAAAGggTCAGAGAACTGTGTACCGTCTCACACTGGTTAAGTCCTGGAACAATGAAGAAATCAAAAACTATGCCGACTTGGTATCTATTGGCAAACCAGACTTCATTGAAGTTAAGGGTGTAACCTATTGTGGGGAATCTAAAGCATCCACCCTCACGATGCAGAATGTACCATGGCATGAAGAGGTCATTGGGTTTGTTCAGAAGCTAACAGATTTACTACCTGACTATGAGATCGCCTGTGAACATGAACATTCCAACTGTCTTCTTATTTGCCACAAGAAGTTTAAGAAAGAAGATGAATGGTACACATGGATTGATTACCCCACTTTCCACCGTCTGATGCAGCGTTATGAAGAGAGCAACGGAACCGAAAACTTTACAGCACTGGACTACATGGCTAAGACACCTGAATGGGCCTTGATGGGCCATGAACAGAGAGGGTTCGATCCAGAGGAAACTCGGTGGCATcgcaagaagaagaaggacATTAGTGGCTGTTAAACATTTCCAATGGACGAATTTGTGTGTACTTACCTTTGCTGTTGGGTTAGTCCGCTCTATGCGGTTCGAAAGAGTGACGTATTTCAAGTATGAAGTGGAGGAGAGGTTTCGATTTCATTTTTGGAGTGCGTGACTTTTTGGGAACATGATGGCAACATTTTCGAGGAGCAAACTGGAGGATTACATTAATGTAGCTTGTAACTGGACATTTAAGCCCAAGAAAACCATTTGAAGAAACGTTTTATCCTAAGTCTTTAGCACCTTTAGCTAGTTGGCAAACAGGGCCACACTTTAGCACCATTAGACTTGCGTTTTCCTGCACCTGGAAAGATTTGAGACGCGTTGGGGGAGGTTTTCTAGGGATCTGGCTCTAATGGCTAGTGTCAGACCCCTGACACCCTTATACTTTCCCGCGGGCGGAAGAAATGCTCGTGCCAGAGCGCTTATAATAAGGACTAGCTCGTAAGCTAAACCTTTATCCTGCTTTGAAAGCTggcatattttaaaatgcccCGAAGAAGCTTCGGTTACTGTTGTTACAATAATCTGGCAGGAATACCTGTTTACACGCAAGCTTCCTgtaatttatattattaactGTGTGAAATGTTGATAGACGCAATCTGAGTACGAAATGCGCGTAAATTACgcagagaaaataaaacggaACCCGTCAAATTCGTGTACTGAGGTTATAGTGTGTGAACTAAGACAAAACAACATGTATGACGGCTTGAAATTCCAGTCTACAGTGCCGTAAGTAAAAGAAGCGTCTAAACAATGTTGAATTATGAATATCGTCAGAGATTGACGataggaaattttttccttggcGCGCATCAGTCTATTATTATTGCGTAAATTTGCTTCGAGCCAAATTTTGGCGATAAAGTATAACTCTCCTCTTGCGATGAATATTCTTTATATgttgtaaaaatattgaaaatgataaataaataaaaacaaaacagaacaaaataatataaaaggTAAACCCAAGACCAAATAGATATGCTCAGTTCCTCATATTAATTGCgc

Protein

UniProt (Swiss-Prot top hit)

No Swiss-Prot hit above the reporting threshold for this gene.

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00258 all species →	Flavodoxin_1	Flavodoxin	Domain	Interproscan
PF04055 all species →	Radical_SAM	Radical SAM superfamily	Domain	Interproscan
PF08608 all species →	Wyosine_form	Wyosine base formation	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR013785 all species →	Homologous_superfamily	Aldolase-type TIM barrel	Interproscan
IPR034556 all species →	Family	S-adenosyl-L-methionine-dependent tRNA 4-demethylwyosine synthase	Interproscan
IPR008254 all species →	Domain	Flavodoxin/nitric oxide synthase	Interproscan
IPR029039 all species →	Homologous_superfamily	Flavoprotein-like superfamily	Interproscan
IPR007197 all species →	Domain	Radical SAM	Interproscan
IPR013917 all species →	Domain	tRNA wybutosine-synthesis	Interproscan
IPR001094 all species →	Domain	Flavodoxin-like	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR13930 all species →	S-ADENOSYL-L-METHIONINE-DEPENDENT TRNA 4-DEMETHYLWYOSINE SYNTHASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0008033 all species →	Biological Process	tRNA processing	Interproscan
GO:0031591 all species →	Biological Process	wybutosine biosynthetic process	Interproscan
GO:0051539 all species →	Molecular Function	4 iron, 4 sulfur cluster binding	Interproscan
GO:0010181 all species →	Molecular Function	FMN binding	Interproscan
GO:0003824 all species →	Molecular Function	catalytic activity	Interproscan
GO:0051536 all species →	Molecular Function	iron-sulfur cluster 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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K15449	TYW1; tRNA wybutosine-synthesizing protein 1	EC:4.1.3.44	Transfer RNA biogenesis	ko03016	deepkoala

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