General information for g10329.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as S-methyl-5’-thioadenosine phosphorylase.
Parent gene
- The parent gene g10329 is located on chr_1: 8927351..8928353 (- 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_1 | g10329 | g10329.t4 | TTS | g10329.t4 | 8927229 | 8927229 |
| chr_1 | g10329 | g10329.t4 | isoform | g10329.t4 | 8927351 | 8928353 |
| chr_1 | g10329 | g10329.t4 | exon | g10329.t4.exon1 | 8927351 | 8927925 |
| chr_1 | g10329 | g10329.t4 | cds | g10329.t4.CDS1 | 8927351 | 8927925 |
| chr_1 | g10329 | g10329.t4 | exon | g10329.t4.exon2 | 8928016 | 8928353 |
| chr_1 | g10329 | g10329.t4 | cds | g10329.t4.CDS2 | 8928016 | 8928100 |
| chr_1 | g10329 | g10329.t4 | TSS | g10329.t4 | 8928439 | 8928439 |
Sequences
>g10329.t4 Gene=g10329 Length=913
ATGAAGGTGAAAATTGGAATTATTGGTGGAACTGGCTTAGATAACAATGGAGATTTAATT
GAGAAACGTAATGAAAAAAGTGTTTCTACTCCTTATGGTAGTGTTGAAATTATTGAAGGC
AAGATTAAAGGAGTCGATTGTGTAAGTTTCATACATAAATTGAATTCAAATTTTTATGTT
ATCAATATTGTGTCTTTTACATTTTCATATTTTTAAGGTTCTTCTCGCAAGACATGGCAA
AAGTCATTCAGTAATGCCAACGAATGTAAATTATCGTGCAAATATATCTGCATTGAAAAT
ACTTGAGTGTACGCACATTATCGCAACGACTGCCACAGGTTCTCTCAAGGAAGAAATTTC
TCCCGGTTCAATTGTTATTGTCGATGATTTTATAGATAGAACAAAATCACGCATTTATAC
ATTTTATGATGGCTCACAGCATGCGCTTGGAGTCTGTCACATTCCTATGAGCCCCGCATT
CGACGAGCGCACTCGAAATGTTATAATTGAAACTGCTAAAGAACTTGGTATTCAAGTTTT
TCCCAAAGGAACTGTTGTATGTATTGAGGGACCACGTTTTTCAACTAAAGCTGAATCAAA
CATTTATCGTTCATGGGGTAGCGATTTGGTTGGAATGACAATTTGCCCTGAGGTACAACT
TGCAAAGGAAAAAGGATTACTTTATGCAAGTATCGCAATGGCAACTGATTATGATTGCTG
GAGAGAGTGCAGCGAAGGTCGTGTAAGCGTTGAGGAAGTAATGGCTACTTTTAAGAATAA
TGTAGAAAAAGTAACTAAGTTGCTCATTGCACTTATACCAAATATCGCTAAACTTGATTG
GACTGAAACAATCAATGATTTAAATAATTTGGTGAACAGTTCAATTATGTTGCCTCATCA
ATACAGCAAATAA
>g10329.t4 Gene=g10329 Length=219
MPTNVNYRANISALKILECTHIIATTATGSLKEEISPGSIVIVDDFIDRTKSRIYTFYDG
SQHALGVCHIPMSPAFDERTRNVIIETAKELGIQVFPKGTVVCIEGPRFSTKAESNIYRS
WGSDLVGMTICPEVQLAKEKGLLYASIAMATDYDCWRECSEGRVSVEEVMATFKNNVEKV
TKLLIALIPNIAKLDWTETINDLNNLVNSSIMLPHQYSK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g10329.t4 | CDD | cd09010 | MTAP_SsMTAPII_like_MTIP | 1 | 188 | 0 |
| 4 | g10329.t4 | Gene3D | G3DSA:3.40.50.1580 | - | 1 | 216 | 0 |
| 2 | g10329.t4 | PANTHER | PTHR42679 | S-METHYL-5’-THIOADENOSINE PHOSPHORYLASE | 1 | 207 | 0 |
| 1 | g10329.t4 | Pfam | PF01048 | Phosphorylase superfamily | 2 | 186 | 0 |
| 3 | g10329.t4 | SUPERFAMILY | SSF53167 | Purine and uridine phosphorylases | 2 | 201 | 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:0017061 | S-methyl-5-thioadenosine phosphorylase activity | MF |
| GO:0009116 | nucleoside metabolic process | BP |
| GO:0003824 | catalytic activity | MF |
KEGG
Orthology
- This transcript has been annotated with K00772 (5’-methylthioadenosine phosphorylase)
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.
