General information for g1419.t2
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.t2 | TSS | g1419.t2 | 10827732 | 10827732 |
| chr_3 | g1419 | g1419.t2 | isoform | g1419.t2 | 10827840 | 10830729 |
| chr_3 | g1419 | g1419.t2 | exon | g1419.t2.exon1 | 10827840 | 10829070 |
| chr_3 | g1419 | g1419.t2 | cds | g1419.t2.CDS1 | 10828710 | 10829070 |
| chr_3 | g1419 | g1419.t2 | exon | g1419.t2.exon2 | 10829513 | 10830729 |
| chr_3 | g1419 | g1419.t2 | cds | g1419.t2.CDS2 | 10829513 | 10830219 |
| chr_3 | g1419 | g1419.t2 | TTS | g1419.t2 | NA | NA |
Sequences
>g1419.t2 Gene=g1419 Length=2448
ATGTCTTCTGAAGGTGAATTTTGACCTTGGGAATTAATTTTTGTAAACAAAATATTGTGT
TTAGTGATTTTTTTAAAAAATATTTGTGGATTTCATAATATTTTGAAATTTTTATAGAAT
TAAAATTTAAATTGATAAAAATTTGTTATGAGATTATTTGAATATTTTGTGACATAAAAT
TAAGAAATTTTCCAACATTTTTTCAAATTTTAAATTACTTCTAAGGTCAATGACCTCATT
TCAAAATAATTTTGACCTTGAAAATTAGCTTACATTGTCAAGTTCAATTGATCTGTTTTT
CTATCAAAATTAAATTTAATTTAGACATTTAAAAATTTTTTGATGAGGTCAATGACCTAA
TTTAAAAACAACCATCAGTTATGACCTTGAAAATGAACTTGTTGTTGTTTACTCAATTTC
TACTAATCTACTTTTTTTATAAAAATAGAAGCTAAAAATGGACCAGGTTATCCATCTCCA
CTCTGGGCTTATGAAAATGGACCAAGAGAAAAAATTCTTTATGTTGCAAACATTCAACCA
AATTTAGAAGATGAAAAAGGCGATTATTTAAGTGTTGTTGACGTTGATCCAGAAAGTCAG
ACTTATTGTCAAGTTATACATCGTGCATTTAGTGAAGCCAAAGGTCAAGAATTTCACCAC
ATGGGTTGGAATACGTGCTCAAGTCGTCATTGTTGCCAAAATACTAAAAGAAACAAACTT
ATTTTACCTTGTCTCAATTCTGATGCCATGTAAATAATTTTTTAAAAATCTGTAAATTTT
CCATGGCAATTTTTAAATTTTTTCAGTTATGTCTTTGATGTTGAATATAATTTAAAAAAG
CCAAAAATTCACAAAGTTAATTATGGTGAAATGCTTCGTAGTCATGATGTGTCAGCACCA
CATACTGTTCATTGTTTACCATCAGGAAATTTAATGATTTCTACATTAGGCGATAAAGAT
GGAAATGCAAAAGGCGATTTTATTTTGCTTGATAAAAATTTTGATGTTATTGGAACTTGG
TCAAAAGATAAAAAGGCATTGTGTGGCTATGACTTTTGGTATCAACCATATTTTGATGTT
TTAATTGGAACTGAATGGGGTGCACCTAAATTATTCCGTAAAGAGTTTAGTATTAGTGCT
ATGCAATCTACACGTGATTTTGGTCAACGATTGAATGTTTATTCATATAATGATGGAACA
TTGTTGGACACAATTGATCTTGGAATGGAAGGAAAACTTCCTCTTGAAATTCGTTTCTTG
CATAATCCAAAAAGATGTGAAGGCTTTGTGGGCTGCGCATTTTATAGTAATATGTTTTAT
TTCTACAAGAAAGATCCAAAAGATGAAAAATTCACAGTTAAAAAAGTTATTGATGTTCCA
GCAAAGAAAGTAGAAGGATGGTATATGCCAGAATTATATGGAATGATGGTAGATTTAGTG
ATTTCATTGGATGATCGTTTCCTTTACTTTAGTAATTGGTTTCATGGTGATGTCAGACAA
TATGACATAAGTGATCCATTAAATCCCAGAATGACAGGACAAATTTTCTTAGGTGGAATG
ATTCATAAAGGAACTGATCTAAAATTAATTGAAGATGAAGAATTAAAGGTGCAACCTGAA
GCAAGATTTATTAAAGGAAGACAAATCTTTGGTGGACCACAAATGTTGCAGTTAAGTTTG
GATGGTAAAAGACTTTATGTAAGTAATTCATTTTACTCACCTTGGGATAAAATGCTGTAT
CCTGATCTGGTTAAAAATGGTTCAACAATCGTTCAAATTGATATTGACACTACAAATGGT
GGAATGACATTGAATGAAAATTTCTTGGTTGATTTTGGTAAAGAACCAAATGGTCCTGTT
TTGGCTCATGAAATGAGATATCCTGGTGGTGACTGCACCTCAGATATTTGGCTTGCTGAT
GATAATGACAATAATTAATTTTAAAATTATTCAAATGCTATATAAAGTCATTCACAATCT
AAATTTATAGAAAAACTAAAAATATTTTGTCATCAAGTTTAAAATAATTTTGCATCATAA
AAAATTTGAAATGTAAACAAAAAATTATTTTTAGAACAAAATTTTGTATCAAAGAATTCT
AAAACTTTGAGTAACTTCAAAGTATGAAAGTTAAATTTTGCGATTATTTCTTTTTTATTA
ATCAAAAATGCTAAGAAAATAACGAAAAAATATAGAAATTGTTACAAAAACTAAAATTTA
TTTATTATGTCTGTTTAAAAAATTAAAGAATTAAACAAAAGAATGAGGAAAAATGTGAAA
TCAAGAATTGAATAAAAAAATTGGATTTTATTTTGGCGTTTCAAGATTAGAAATCAGAAA
TTTTGATTTTTTAGAACATTTCATATTACAATTCTTGTTAAATGCTTACAAAATTTTATA
TTAAAAATAAAGAAATAAAAATCAAAAATTTTATATAATAAAACTAAA
>g1419.t2 Gene=g1419 Length=355
MLRSHDVSAPHTVHCLPSGNLMISTLGDKDGNAKGDFILLDKNFDVIGTWSKDKKALCGY
DFWYQPYFDVLIGTEWGAPKLFRKEFSISAMQSTRDFGQRLNVYSYNDGTLLDTIDLGME
GKLPLEIRFLHNPKRCEGFVGCAFYSNMFYFYKKDPKDEKFTVKKVIDVPAKKVEGWYMP
ELYGMMVDLVISLDDRFLYFSNWFHGDVRQYDISDPLNPRMTGQIFLGGMIHKGTDLKLI
EDEELKVQPEARFIKGRQIFGGPQMLQLSLDGKRLYVSNSFYSPWDKMLYPDLVKNGSTI
VQIDIDTTNGGMTLNENFLVDFGKEPNGPVLAHEMRYPGGDCTSDIWLADDNDNN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g1419.t2 | PANTHER | PTHR23300:SF11 | SELENIUM-BINDING PROTEIN 1 | 7 | 348 | 0 |
| 3 | g1419.t2 | PANTHER | PTHR23300 | METHANETHIOL OXIDASE | 7 | 348 | 0 |
| 1 | g1419.t2 | Pfam | PF05694 | 56kDa selenium binding protein (SBP56) | 3 | 348 | 0 |
| 4 | g1419.t2 | SUPERFAMILY | SSF75011 | 3-carboxy-cis,cis-mucoante lactonizing enzyme | 8 | 280 | 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