General information for g10329.t3
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.t3 | TTS | g10329.t3 | 8927229 | 8927229 |
| chr_1 | g10329 | g10329.t3 | isoform | g10329.t3 | 8927351 | 8928353 |
| chr_1 | g10329 | g10329.t3 | exon | g10329.t3.exon1 | 8927351 | 8927925 |
| chr_1 | g10329 | g10329.t3 | cds | g10329.t3.CDS1 | 8927351 | 8927925 |
| chr_1 | g10329 | g10329.t3 | exon | g10329.t3.exon2 | 8928016 | 8928136 |
| chr_1 | g10329 | g10329.t3 | cds | g10329.t3.CDS2 | 8928016 | 8928136 |
| chr_1 | g10329 | g10329.t3 | exon | g10329.t3.exon3 | 8928215 | 8928353 |
| chr_1 | g10329 | g10329.t3 | cds | g10329.t3.CDS3 | 8928215 | 8928283 |
| chr_1 | g10329 | g10329.t3 | TSS | g10329.t3 | 8928439 | 8928439 |
Sequences
>g10329.t3 Gene=g10329 Length=835
ATGAAGGTGAAAATTGGAATTATTGGTGGAACTGGCTTAGATAACAATGGAGATTTAATT
GAGAAACGTAATGAAAAAAGTGTTTCTACTCCTTATGGTAGTGTTGAAATTATTGAAGGC
AAGATTAAAGGAGTCGATTGTTCTTCTCGCAAGACATGGCAAAAGTCATTCAGTAATGCC
AACGAATGTAAATTATCGTGCAAATATATCTGCATTGAAAATACTTGAGTGTACGCACAT
TATCGCAACGACTGCCACAGGTTCTCTCAAGGAAGAAATTTCTCCCGGTTCAATTGTTAT
TGTCGATGATTTTATAGATAGAACAAAATCACGCATTTATACATTTTATGATGGCTCACA
GCATGCGCTTGGAGTCTGTCACATTCCTATGAGCCCCGCATTCGACGAGCGCACTCGAAA
TGTTATAATTGAAACTGCTAAAGAACTTGGTATTCAAGTTTTTCCCAAAGGAACTGTTGT
ATGTATTGAGGGACCACGTTTTTCAACTAAAGCTGAATCAAACATTTATCGTTCATGGGG
TAGCGATTTGGTTGGAATGACAATTTGCCCTGAGGTACAACTTGCAAAGGAAAAAGGATT
ACTTTATGCAAGTATCGCAATGGCAACTGATTATGATTGCTGGAGAGAGTGCAGCGAAGG
TCGTGTAAGCGTTGAGGAAGTAATGGCTACTTTTAAGAATAATGTAGAAAAAGTAACTAA
GTTGCTCATTGCACTTATACCAAATATCGCTAAACTTGATTGGACTGAAACAATCAATGA
TTTAAATAATTTGGTGAACAGTTCAATTATGTTGCCTCATCAATACAGCAAATAA
>g10329.t3 Gene=g10329 Length=254
MKKVFLLLMVVLKLLKARLKESIVLLARHGKSHSVMPTNVNYRANISALKILECTHIIAT
TATGSLKEEISPGSIVIVDDFIDRTKSRIYTFYDGSQHALGVCHIPMSPAFDERTRNVII
ETAKELGIQVFPKGTVVCIEGPRFSTKAESNIYRSWGSDLVGMTICPEVQLAKEKGLLYA
SIAMATDYDCWRECSEGRVSVEEVMATFKNNVEKVTKLLIALIPNIAKLDWTETINDLNN
LVNSSIMLPHQYSK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 13 | g10329.t3 | CDD | cd09010 | MTAP_SsMTAPII_like_MTIP | 23 | 223 | 3.36833E-114 |
| 7 | g10329.t3 | Gene3D | G3DSA:3.40.50.1580 | - | 9 | 251 | 2.5E-79 |
| 3 | g10329.t3 | Hamap | MF_01963 | S-methyl-5’-thioadenosine phosphorylase [mtnP]. | 2 | 251 | 32.244499 |
| 2 | g10329.t3 | PANTHER | PTHR42679 | S-METHYL-5’-THIOADENOSINE PHOSPHORYLASE | 21 | 242 | 4.9E-90 |
| 1 | g10329.t3 | Pfam | PF01048 | Phosphorylase superfamily | 18 | 221 | 2.1E-35 |
| 9 | g10329.t3 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 19 | - |
| 10 | g10329.t3 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 3 | - |
| 11 | g10329.t3 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 4 | 15 | - |
| 12 | g10329.t3 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 16 | 19 | - |
| 8 | g10329.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 20 | 254 | - |
| 4 | g10329.t3 | SUPERFAMILY | SSF53167 | Purine and uridine phosphorylases | 22 | 236 | 1.03E-70 |
| 6 | g10329.t3 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 17 | - |
| 5 | g10329.t3 | SignalP_GRAM_POSITIVE | SignalP-TM | SignalP-TM | 1 | 11 | - |
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. There were no conditions that were differentially expressed