General information for g1419.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Methanethiol oxidase.
Parent gene
- The parent gene g1419 is located on chr_3: 10828982..10830729 (+ strand)
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.t3 | TSS | g1419.t3 | 10827732 | 10827732 |
| chr_3 | g1419 | g1419.t3 | isoform | g1419.t3 | 10827840 | 10830729 |
| chr_3 | g1419 | g1419.t3 | exon | g1419.t3.exon1 | 10827840 | 10828588 |
| chr_3 | g1419 | g1419.t3 | cds | g1419.t3.CDS1 | 10828500 | 10828588 |
| chr_3 | g1419 | g1419.t3 | exon | g1419.t3.exon2 | 10828646 | 10829070 |
| chr_3 | g1419 | g1419.t3 | cds | g1419.t3.CDS2 | 10828646 | 10829070 |
| chr_3 | g1419 | g1419.t3 | exon | g1419.t3.exon3 | 10829513 | 10830729 |
| chr_3 | g1419 | g1419.t3 | cds | g1419.t3.CDS3 | 10829513 | 10830219 |
| chr_3 | g1419 | g1419.t3 | TTS | g1419.t3 | NA | NA |
Sequences
>g1419.t3 Gene=g1419 Length=2391
ATGTCTTCTGAAGGTGAATTTTGACCTTGGGAATTAATTTTTGTAAACAAAATATTGTGT
TTAGTGATTTTTTTAAAAAATATTTGTGGATTTCATAATATTTTGAAATTTTTATAGAAT
TAAAATTTAAATTGATAAAAATTTGTTATGAGATTATTTGAATATTTTGTGACATAAAAT
TAAGAAATTTTCCAACATTTTTTCAAATTTTAAATTACTTCTAAGGTCAATGACCTCATT
TCAAAATAATTTTGACCTTGAAAATTAGCTTACATTGTCAAGTTCAATTGATCTGTTTTT
CTATCAAAATTAAATTTAATTTAGACATTTAAAAATTTTTTGATGAGGTCAATGACCTAA
TTTAAAAACAACCATCAGTTATGACCTTGAAAATGAACTTGTTGTTGTTTACTCAATTTC
TACTAATCTACTTTTTTTATAAAAATAGAAGCTAAAAATGGACCAGGTTATCCATCTCCA
CTCTGGGCTTATGAAAATGGACCAAGAGAAAAAATTCTTTATGTTGCAAACATTCAACCA
AATTTAGAAGATGAAAAAGGCGATTATTTAAGTGTTGTTGACGTTGATCCAGAAAGTCAG
ACTTATTGTCAAGTTATACATCGTGCATTTAGTGAAGCCAAAGGTCAAGAATTTCACCAC
ATGGGTTGGAATACGTGCTCAAGTCGTCATTGTTGCCAAAATACTAAAAGAAACAAACTT
ATTTTACCTTGTCTCAATTCTGATGCCATTTATGTCTTTGATGTTGAATATAATTTAAAA
AAGCCAAAAATTCACAAAGTTAATTATGGTGAAATGCTTCGTAGTCATGATGTGTCAGCA
CCACATACTGTTCATTGTTTACCATCAGGAAATTTAATGATTTCTACATTAGGCGATAAA
GATGGAAATGCAAAAGGCGATTTTATTTTGCTTGATAAAAATTTTGATGTTATTGGAACT
TGGTCAAAAGATAAAAAGGCATTGTGTGGCTATGACTTTTGGTATCAACCATATTTTGAT
GTTTTAATTGGAACTGAATGGGGTGCACCTAAATTATTCCGTAAAGAGTTTAGTATTAGT
GCTATGCAATCTACACGTGATTTTGGTCAACGATTGAATGTTTATTCATATAATGATGGA
ACATTGTTGGACACAATTGATCTTGGAATGGAAGGAAAACTTCCTCTTGAAATTCGTTTC
TTGCATAATCCAAAAAGATGTGAAGGCTTTGTGGGCTGCGCATTTTATAGTAATATGTTT
TATTTCTACAAGAAAGATCCAAAAGATGAAAAATTCACAGTTAAAAAAGTTATTGATGTT
CCAGCAAAGAAAGTAGAAGGATGGTATATGCCAGAATTATATGGAATGATGGTAGATTTA
GTGATTTCATTGGATGATCGTTTCCTTTACTTTAGTAATTGGTTTCATGGTGATGTCAGA
CAATATGACATAAGTGATCCATTAAATCCCAGAATGACAGGACAAATTTTCTTAGGTGGA
ATGATTCATAAAGGAACTGATCTAAAATTAATTGAAGATGAAGAATTAAAGGTGCAACCT
GAAGCAAGATTTATTAAAGGAAGACAAATCTTTGGTGGACCACAAATGTTGCAGTTAAGT
TTGGATGGTAAAAGACTTTATGTAAGTAATTCATTTTACTCACCTTGGGATAAAATGCTG
TATCCTGATCTGGTTAAAAATGGTTCAACAATCGTTCAAATTGATATTGACACTACAAAT
GGTGGAATGACATTGAATGAAAATTTCTTGGTTGATTTTGGTAAAGAACCAAATGGTCCT
GTTTTGGCTCATGAAATGAGATATCCTGGTGGTGACTGCACCTCAGATATTTGGCTTGCT
GATGATAATGACAATAATTAATTTTAAAATTATTCAAATGCTATATAAAGTCATTCACAA
TCTAAATTTATAGAAAAACTAAAAATATTTTGTCATCAAGTTTAAAATAATTTTGCATCA
TAAAAAATTTGAAATGTAAACAAAAAATTATTTTTAGAACAAAATTTTGTATCAAAGAAT
TCTAAAACTTTGAGTAACTTCAAAGTATGAAAGTTAAATTTTGCGATTATTTCTTTTTTA
TTAATCAAAAATGCTAAGAAAATAACGAAAAAATATAGAAATTGTTACAAAAACTAAAAT
TTATTTATTATGTCTGTTTAAAAAATTAAAGAATTAAACAAAAGAATGAGGAAAAATGTG
AAATCAAGAATTGAATAAAAAAATTGGATTTTATTTTGGCGTTTCAAGATTAGAAATCAG
AAATTTTGATTTTTTAGAACATTTCATATTACAATTCTTGTTAAATGCTTACAAAATTTT
ATATTAAAAATAAAGAAATAAAAATCAAAAATTTTATATAATAAAACTAAA
>g1419.t3 Gene=g1419 Length=406
MGWNTCSSRHCCQNTKRNKLILPCLNSDAIYVFDVEYNLKKPKIHKVNYGEMLRSHDVSA
PHTVHCLPSGNLMISTLGDKDGNAKGDFILLDKNFDVIGTWSKDKKALCGYDFWYQPYFD
VLIGTEWGAPKLFRKEFSISAMQSTRDFGQRLNVYSYNDGTLLDTIDLGMEGKLPLEIRF
LHNPKRCEGFVGCAFYSNMFYFYKKDPKDEKFTVKKVIDVPAKKVEGWYMPELYGMMVDL
VISLDDRFLYFSNWFHGDVRQYDISDPLNPRMTGQIFLGGMIHKGTDLKLIEDEELKVQP
EARFIKGRQIFGGPQMLQLSLDGKRLYVSNSFYSPWDKMLYPDLVKNGSTIVQIDIDTTN
GGMTLNENFLVDFGKEPNGPVLAHEMRYPGGDCTSDIWLADDNDNN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g1419.t3 | PANTHER | PTHR23300:SF11 | SELENIUM-BINDING PROTEIN 1 | 2 | 399 | 0 |
| 3 | g1419.t3 | PANTHER | PTHR23300 | METHANETHIOL OXIDASE | 2 | 399 | 0 |
| 1 | g1419.t3 | Pfam | PF05694 | 56kDa selenium binding protein (SBP56) | 1 | 399 | 0 |
| 4 | g1419.t3 | SUPERFAMILY | SSF75011 | 3-carboxy-cis,cis-mucoante lactonizing enzyme | 16 | 331 | 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