General information for g1421.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Methanethiol oxidase.
Parent gene
- The parent gene g1421 is located on chr_3: 10849986..10851172 (+ 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 | g1421 | g1421.t4 | TSS | g1421.t4 | 10848160 | 10848160 |
| chr_3 | g1421 | g1421.t4 | isoform | g1421.t4 | 10848268 | 10851172 |
| chr_3 | g1421 | g1421.t4 | exon | g1421.t4.exon1 | 10848268 | 10848280 |
| chr_3 | g1421 | g1421.t4 | cds | g1421.t4.CDS1 | 10848268 | 10848280 |
| chr_3 | g1421 | g1421.t4 | exon | g1421.t4.exon2 | 10848735 | 10849032 |
| chr_3 | g1421 | g1421.t4 | cds | g1421.t4.CDS2 | 10848735 | 10849032 |
| chr_3 | g1421 | g1421.t4 | exon | g1421.t4.exon3 | 10849090 | 10849514 |
| chr_3 | g1421 | g1421.t4 | cds | g1421.t4.CDS3 | 10849090 | 10849514 |
| chr_3 | g1421 | g1421.t4 | exon | g1421.t4.exon4 | 10849955 | 10851172 |
| chr_3 | g1421 | g1421.t4 | cds | g1421.t4.CDS4 | 10849955 | 10850661 |
| chr_3 | g1421 | g1421.t4 | TTS | g1421.t4 | NA | NA |
Sequences
>g1421.t4 Gene=g1421 Length=1954
ATGTCTTCTGAAGCTAAAAATGGACCAGGTTACCCATCTCCACTCTGGGCTTATGAAAAT
GGACCAAGAGAAAAAATTCTTTATGTTGCAAACATTCAACCAAACTTAGAAGATGAAAAA
GGCGATTATTTAAGTGTTGTTGACGTTGATCCAGAAAGTCAGACTTATTGTCAAGTTATA
CATCGTGCATTTAGTGAAGCCAAAGGTCAAGAATTTCACCACATGGGTTGGAATACGTGC
TCAAGTCGTCATTGTTGCCAAAATACTAAAAGAAACAAACTTATTTTACCTTGTCTCAAT
TCTGATGCCATTTATGTCTTTGATGTTGAATATAATTTAAAAAAGCCAAAAATTCACAAA
GTTAATTATGGTGAAATGCTTCGTAGTCATGATGTGTCAGCACCACATACTGTTCATTGT
TTACCATCAGGAAATTTAATGATTTCTACATTAGGCGATAAAGATGGAAATGCAAAAGGC
GATTTTATTTTGCTTGATAAAAATTTTGATGTTATTGGAACTTGGTCAAAAGATAAAAAG
GCATTGTGTGGCTATGACTTTTGGTATCAACCATATTTTGATGTTTTAATTGGAACTGAA
TGGGGTGCACCTAAATTATTCCGTAAAGAGTTTAGTATTAGTGCTATGCAATCTACACGT
GATTTTGGTCAACGATTGAATGTTTATTCATATAATGATGGAACATTGTTGGACACAATT
GATCTTGGAATGGAAGGAAAACTTCCTCTTGAAATTCGTTTCTTGCATAATCCAAAAAGA
TGTGAAGGCTTTGTGGGCTGCGCATTTTATAGTAATATGTTTTATTTCTACAAGAAAGAT
CCAAAAGATGAAAAATTCACAGTTAAAAAAGTTATTGATGTTCCAGCAAAGAAAGTAGAA
GGATGGTATATGCCAGAATTATATGGAATGATGGTAGATTTGGTGATTTCATTGGATGAT
CGTTTCCTTTACTTTAGTAATTGGTTTCATGGTGATGTCAGACAATATGACATAAGTGAT
CCATTAAATCCCAGAATGACAGGACAAATTTTCTTAGGTGGAATGATTCATAAAGGAACT
GATCTAAAATTAATTGAAGATGAAGAATTAAAGGTGCAACCTGAAGCAAGATTTATTAAA
GGAAGACAAATCTTTGGTGGACCACAAATGTTGCAGTTAAGTTTGGATGGTAAAAGACTT
TATGTAAGTAATTCATTTTACTCACCTTGGGATAAAATGCTGTATCCTGATCTGGTTAAA
AATGGTTCAACAATCGTTCAAATTGATATTGACACTACAAATGGTGGAATGACATTGAAT
GAAAATTTCTTGGTTGATTTTGGTAAAGAACCAAATGGTCCTGTTTTGGCTCATGAAATG
AGATATCCTGGTGGTGACTGCACCTCAGATATTTGGCTTGCTGATGATAATGACAATAAT
TAATTTTAAAATTATTCAAATGCTATATAAAGTCATTCACAATCTAAATTTATAGAAAAA
CTAAAAATATTTTGTCATCAAGTTTAAAATAATTTTGCATCATAAAAAATTTGAAATGTA
AACAAAAAATTATTTTTAGAACAAAATTTTGTATCAAAGAATTCTAAAACTTTGAGTAAC
TTCAAAGTATGAAAGTTAAATTTTGCGATTATTTCTTTTTTATTAATCAAAAATGCTAAG
AAAATAACGAAAAAATATAGAAATTGTTACAAAAACTAAAATTTATTTATTATGTCTGTT
TAAAAAATTAAAGAATTAAACAAAAGAATGAGGAAAAATGTGAAATCAAGAATTGAACAA
AAAAAATTGGATTTTATTTTGGCGTTTCAAGATTAGAAATCAGAAATTTTGATTTTTTAG
AACATTTCATATTACAATTCTTGTTAAATGCTTACAAAATTTTATATTAAAAATAAAGAA
ATAAAAATCAAAAATTTTATATAATAAAACTAAA
>g1421.t4 Gene=g1421 Length=480
MSSEAKNGPGYPSPLWAYENGPREKILYVANIQPNLEDEKGDYLSVVDVDPESQTYCQVI
HRAFSEAKGQEFHHMGWNTCSSRHCCQNTKRNKLILPCLNSDAIYVFDVEYNLKKPKIHK
VNYGEMLRSHDVSAPHTVHCLPSGNLMISTLGDKDGNAKGDFILLDKNFDVIGTWSKDKK
ALCGYDFWYQPYFDVLIGTEWGAPKLFRKEFSISAMQSTRDFGQRLNVYSYNDGTLLDTI
DLGMEGKLPLEIRFLHNPKRCEGFVGCAFYSNMFYFYKKDPKDEKFTVKKVIDVPAKKVE
GWYMPELYGMMVDLVISLDDRFLYFSNWFHGDVRQYDISDPLNPRMTGQIFLGGMIHKGT
DLKLIEDEELKVQPEARFIKGRQIFGGPQMLQLSLDGKRLYVSNSFYSPWDKMLYPDLVK
NGSTIVQIDIDTTNGGMTLNENFLVDFGKEPNGPVLAHEMRYPGGDCTSDIWLADDNDNN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g1421.t4 | PANTHER | PTHR23300:SF11 | SELENIUM-BINDING PROTEIN 1 | 5 | 473 | 0 |
| 3 | g1421.t4 | PANTHER | PTHR23300 | METHANETHIOL OXIDASE | 5 | 473 | 0 |
| 1 | g1421.t4 | Pfam | PF05694 | 56kDa selenium binding protein (SBP56) | 6 | 473 | 0 |
| 4 | g1421.t4 | SUPERFAMILY | SSF75011 | 3-carboxy-cis,cis-mucoante lactonizing enzyme | 40 | 405 | 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. There were no conditions that were differentially expressed