General information for g1419.t1
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.t1 | TSS | g1419.t1 | 10827732 | 10827732 |
| chr_3 | g1419 | g1419.t1 | isoform | g1419.t1 | 10827840 | 10830219 |
| chr_3 | g1419 | g1419.t1 | exon | g1419.t1.exon1 | 10827840 | 10827852 |
| chr_3 | g1419 | g1419.t1 | cds | g1419.t1.CDS1 | 10827840 | 10827852 |
| chr_3 | g1419 | g1419.t1 | exon | g1419.t1.exon2 | 10828288 | 10828588 |
| chr_3 | g1419 | g1419.t1 | cds | g1419.t1.CDS2 | 10828288 | 10828588 |
| chr_3 | g1419 | g1419.t1 | exon | g1419.t1.exon3 | 10828646 | 10829070 |
| chr_3 | g1419 | g1419.t1 | cds | g1419.t1.CDS3 | 10828646 | 10829070 |
| chr_3 | g1419 | g1419.t1 | exon | g1419.t1.exon4 | 10829513 | 10830219 |
| chr_3 | g1419 | g1419.t1 | cds | g1419.t1.CDS4 | 10829513 | 10830219 |
| chr_3 | g1419 | g1419.t1 | TTS | g1419.t1 | 10830576 | 10830576 |
Sequences
>g1419.t1 Gene=g1419 Length=1446
ATGTCTTCTGAAGAAGCTAAAAATGGACCAGGTTATCCATCTCCACTCTGGGCTTATGAA
AATGGACCAAGAGAAAAAATTCTTTATGTTGCAAACATTCAACCAAATTTAGAAGATGAA
AAAGGCGATTATTTAAGTGTTGTTGACGTTGATCCAGAAAGTCAGACTTATTGTCAAGTT
ATACATCGTGCATTTAGTGAAGCCAAAGGTCAAGAATTTCACCACATGGGTTGGAATACG
TGCTCAAGTCGTCATTGTTGCCAAAATACTAAAAGAAACAAACTTATTTTACCTTGTCTC
AATTCTGATGCCATTTATGTCTTTGATGTTGAATATAATTTAAAAAAGCCAAAAATTCAC
AAAGTTAATTATGGTGAAATGCTTCGTAGTCATGATGTGTCAGCACCACATACTGTTCAT
TGTTTACCATCAGGAAATTTAATGATTTCTACATTAGGCGATAAAGATGGAAATGCAAAA
GGCGATTTTATTTTGCTTGATAAAAATTTTGATGTTATTGGAACTTGGTCAAAAGATAAA
AAGGCATTGTGTGGCTATGACTTTTGGTATCAACCATATTTTGATGTTTTAATTGGAACT
GAATGGGGTGCACCTAAATTATTCCGTAAAGAGTTTAGTATTAGTGCTATGCAATCTACA
CGTGATTTTGGTCAACGATTGAATGTTTATTCATATAATGATGGAACATTGTTGGACACA
ATTGATCTTGGAATGGAAGGAAAACTTCCTCTTGAAATTCGTTTCTTGCATAATCCAAAA
AGATGTGAAGGCTTTGTGGGCTGCGCATTTTATAGTAATATGTTTTATTTCTACAAGAAA
GATCCAAAAGATGAAAAATTCACAGTTAAAAAAGTTATTGATGTTCCAGCAAAGAAAGTA
GAAGGATGGTATATGCCAGAATTATATGGAATGATGGTAGATTTAGTGATTTCATTGGAT
GATCGTTTCCTTTACTTTAGTAATTGGTTTCATGGTGATGTCAGACAATATGACATAAGT
GATCCATTAAATCCCAGAATGACAGGACAAATTTTCTTAGGTGGAATGATTCATAAAGGA
ACTGATCTAAAATTAATTGAAGATGAAGAATTAAAGGTGCAACCTGAAGCAAGATTTATT
AAAGGAAGACAAATCTTTGGTGGACCACAAATGTTGCAGTTAAGTTTGGATGGTAAAAGA
CTTTATGTAAGTAATTCATTTTACTCACCTTGGGATAAAATGCTGTATCCTGATCTGGTT
AAAAATGGTTCAACAATCGTTCAAATTGATATTGACACTACAAATGGTGGAATGACATTG
AATGAAAATTTCTTGGTTGATTTTGGTAAAGAACCAAATGGTCCTGTTTTGGCTCATGAA
ATGAGATATCCTGGTGGTGACTGCACCTCAGATATTTGGCTTGCTGATGATAATGACAAT
AATTAA
>g1419.t1 Gene=g1419 Length=481
MSSEEAKNGPGYPSPLWAYENGPREKILYVANIQPNLEDEKGDYLSVVDVDPESQTYCQV
IHRAFSEAKGQEFHHMGWNTCSSRHCCQNTKRNKLILPCLNSDAIYVFDVEYNLKKPKIH
KVNYGEMLRSHDVSAPHTVHCLPSGNLMISTLGDKDGNAKGDFILLDKNFDVIGTWSKDK
KALCGYDFWYQPYFDVLIGTEWGAPKLFRKEFSISAMQSTRDFGQRLNVYSYNDGTLLDT
IDLGMEGKLPLEIRFLHNPKRCEGFVGCAFYSNMFYFYKKDPKDEKFTVKKVIDVPAKKV
EGWYMPELYGMMVDLVISLDDRFLYFSNWFHGDVRQYDISDPLNPRMTGQIFLGGMIHKG
TDLKLIEDEELKVQPEARFIKGRQIFGGPQMLQLSLDGKRLYVSNSFYSPWDKMLYPDLV
KNGSTIVQIDIDTTNGGMTLNENFLVDFGKEPNGPVLAHEMRYPGGDCTSDIWLADDNDN
N
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g1419.t1 | PANTHER | PTHR23300:SF11 | SELENIUM-BINDING PROTEIN 1 | 6 | 474 | 0 |
| 3 | g1419.t1 | PANTHER | PTHR23300 | METHANETHIOL OXIDASE | 6 | 474 | 0 |
| 1 | g1419.t1 | Pfam | PF05694 | 56kDa selenium binding protein (SBP56) | 7 | 474 | 0 |
| 4 | g1419.t1 | SUPERFAMILY | SSF75011 | 3-carboxy-cis,cis-mucoante lactonizing enzyme | 41 | 406 | 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 transcript has been annotated with K17285 (methanethiol oxidase)
Pathway
- This transcript belongs to the following pathways
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.
