Gene loci information

Transcript annotation

  • This transcript has been annotated as Methanethiol oxidase.

Parent gene

Gene structure

  • The exon-intron structure of all isoforms are indicated below. CDS regions are colored in green. TSS and TTs that were predicted with CTR-Seq data are indicated in solid circle and squares, respectively. More specific data are shown in the table below.

Chromosome Gene Transcript Category ID Start End
chr_3 g1419 g1419.t4 isoform g1419.t4 10828982 10830729
chr_3 g1419 g1419.t4 exon g1419.t4.exon1 10828982 10830729
chr_3 g1419 g1419.t4 cds g1419.t4.CDS1 10829593 10830219
chr_3 g1419 g1419.t4 TSS g1419.t4 NA NA
chr_3 g1419 g1419.t4 TTS g1419.t4 NA NA

Sequences

>g1419.t4 Gene=g1419 Length=1748
GCAATCTACACGTGATTTTGGTCAACGATTGAATGTTTATTCATATAATGATGGAACATT
GTTGGACACAATTGATCTTGGAATGGAAGGTAAGAATTAACAATGTTATTTAGGCCAGTT
GGAGATTTGTGAGAAATTTGTAGAAAACATTGAAAAATTTTCAGATATTTGAAGATTTTT
TGAAAACTTTGGAATTTATGAGTTTTTCTGAATTTTGAAAAAAATTAAGGTTTTTTGATT
ATTTTGAAATTTTGGACACTTTTTAAAATTTCTGAGTTTTTGGTAATTTTCGAAAAAATT
TTCAGTTTTAATTTTTCAAAAAGGTTTGGGCATTTTCGGGTATTTTTGGGCATTTAAAAA
AAATTTTGGGAAAATTTGATGATTTTTAAAGATTAATGAATATTTTTGATTTTTGACTTA
TTTTAAAAGACTTTTAGGAATTTTAAATTATTTTGAGGATTTTTCTTGACTGTTAATCCT
TTAAATTTTTAAATCATAAATTTACGTTATTTTCAAAAAATTTATTTACAGGAAAACTTC
CTCTTGAAATTCGTTTCTTGCATAATCCAAAAAGATGTGAAGGCTTTGTGGGCTGCGCAT
TTTATAGTAATATGTTTTATTTCTACAAGAAAGATCCAAAAGATGAAAAATTCACAGTTA
AAAAAGTTATTGATGTTCCAGCAAAGAAAGTAGAAGGATGGTATATGCCAGAATTATATG
GAATGATGGTAGATTTAGTGATTTCATTGGATGATCGTTTCCTTTACTTTAGTAATTGGT
TTCATGGTGATGTCAGACAATATGACATAAGTGATCCATTAAATCCCAGAATGACAGGAC
AAATTTTCTTAGGTGGAATGATTCATAAAGGAACTGATCTAAAATTAATTGAAGATGAAG
AATTAAAGGTGCAACCTGAAGCAAGATTTATTAAAGGAAGACAAATCTTTGGTGGACCAC
AAATGTTGCAGTTAAGTTTGGATGGTAAAAGACTTTATGTAAGTAATTCATTTTACTCAC
CTTGGGATAAAATGCTGTATCCTGATCTGGTTAAAAATGGTTCAACAATCGTTCAAATTG
ATATTGACACTACAAATGGTGGAATGACATTGAATGAAAATTTCTTGGTTGATTTTGGTA
AAGAACCAAATGGTCCTGTTTTGGCTCATGAAATGAGATATCCTGGTGGTGACTGCACCT
CAGATATTTGGCTTGCTGATGATAATGACAATAATTAATTTTAAAATTATTCAAATGCTA
TATAAAGTCATTCACAATCTAAATTTATAGAAAAACTAAAAATATTTTGTCATCAAGTTT
AAAATAATTTTGCATCATAAAAAATTTGAAATGTAAACAAAAAATTATTTTTAGAACAAA
ATTTTGTATCAAAGAATTCTAAAACTTTGAGTAACTTCAAAGTATGAAAGTTAAATTTTG
CGATTATTTCTTTTTTATTAATCAAAAATGCTAAGAAAATAACGAAAAAATATAGAAATT
GTTACAAAAACTAAAATTTATTTATTATGTCTGTTTAAAAAATTAAAGAATTAAACAAAA
GAATGAGGAAAAATGTGAAATCAAGAATTGAATAAAAAAATTGGATTTTATTTTGGCGTT
TCAAGATTAGAAATCAGAAATTTTGATTTTTTAGAACATTTCATATTACAATTCTTGTTA
AATGCTTACAAAATTTTATATTAAAAATAAAGAAATAAAAATCAAAAATTTTATATAATA
AAACTAAA

>g1419.t4 Gene=g1419 Length=208
MFYFYKKDPKDEKFTVKKVIDVPAKKVEGWYMPELYGMMVDLVISLDDRFLYFSNWFHGD
VRQYDISDPLNPRMTGQIFLGGMIHKGTDLKLIEDEELKVQPEARFIKGRQIFGGPQMLQ
LSLDGKRLYVSNSFYSPWDKMLYPDLVKNGSTIVQIDIDTTNGGMTLNENFLVDFGKEPN
GPVLAHEMRYPGGDCTSDIWLADDNDNN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g1419.t4 PANTHER PTHR23300:SF11 SELENIUM-BINDING PROTEIN 1 4 201 0
3 g1419.t4 PANTHER PTHR23300 METHANETHIOL OXIDASE 4 201 0
1 g1419.t4 Pfam PF05694 56kDa selenium binding protein (SBP56) 2 201 0
4 g1419.t4 SUPERFAMILY SSF75011 3-carboxy-cis,cis-mucoante lactonizing enzyme 8 133 0

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

GO terms from InterProScan

GOID TERM ONTOLOGY
GO:0008430 selenium binding MF

KEGG

Orthology

This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).

Expression

Transcript expression in Pv11 cells

TPM values are indicated as average +/- STDEV.

Differential expression

Differentially expressed genes were identified with DESeq2 using the ‘run_DE_analysis.pl’ script from Trinity. Transcripts were determined as differentially expressed when (1) FDR < 0.05 (2) fold change > 2 (TPM calculated by RSEM). DE information and fold change between conditions are indicated in the plot below. There were no conditions that were differentially expressed