General information for g10351.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Serine/threonine-protein phosphatase Pgam5, mitochondrial.
Parent gene
- The parent gene g10351 is located on chr_1: 9053725..9054687 (+ 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 | g10351 | g10351.t3 | TSS | g10351.t3 | 9053676 | 9053676 |
| chr_1 | g10351 | g10351.t3 | isoform | g10351.t3 | 9053725 | 9054623 |
| chr_1 | g10351 | g10351.t3 | exon | g10351.t3.exon1 | 9053725 | 9054239 |
| chr_1 | g10351 | g10351.t3 | cds | g10351.t3.CDS1 | 9053725 | 9054239 |
| chr_1 | g10351 | g10351.t3 | exon | g10351.t3.exon2 | 9054304 | 9054623 |
| chr_1 | g10351 | g10351.t3 | cds | g10351.t3.CDS2 | 9054304 | 9054316 |
| chr_1 | g10351 | g10351.t3 | TTS | g10351.t3 | 9054692 | 9054692 |
Sequences
>g10351.t3 Gene=g10351 Length=835
ATGTATTCAAAGTTTTTAAAGCAGTCAGCAACACTAGTTTGCTATTCTTGCAGTGCAGTT
TCATTAGCATTTTTTGTGAAAAAAGAAAAAATTAGAACATATTGTTCATGGACAACAAAC
ATTCCATCAATAGCTTGGGATGATAATTGGGATTTTCGAGCTCCGACTGCAATTATTAAG
CCTTTAAAAGAAGGTTCTAGTCCAGAAAAAGAAAATGAGTACAATGAAAAACTTGAGAAA
TTAAAACCTAAGGCATCAAGACATTTTCTTCTAATAAGACATGGTCAATACAATCTTAAT
GGCCTTACAGACAAAGAAAGAGTATTGACCAAACTTGGTCGAGAGCAGGCAATTAAAACT
GGTCAACGTTTGAAGGAATTAGAATTTCCTATATCTCAGTTTGCAATTTCGACTATGACA
CGTGCACAAGAAACAGCTAATTTAATAATGGAACAACTTCCAGAAAAGCTAAAGTTTGAA
AAGATACATGATTCAATGCTTGAAGAGGGTGCAGTATCCACCAATTGAATATTGGAATCC
TGAAGAGCACGAATTCTTCACTGAAGGAGCAAGAATTGAGGCGGCATTTAGAAAATACAT
TCATCGTGCTGATCCAGAGCAAGAAAAAGATTCATATACTGCCATAGTTTGTCATGGAAA
TGTAATTCGTTATTTTGTATGTAGAGCGCTTCAGCTCCCGCCACAAGCTTGGCTTCGATT
AGGTATACATCATGCTTCAATCACTTGGATTGTTGTCTATCCGAGTGGAAGGGTTGTTTT
AAGATTTTTTGGAGATTGTGGCTATATGCCTAAATCACATGTAACACAATCCTAA
>g10351.t3 Gene=g10351 Length=175
MYSKFLKQSATLVCYSCSAVSLAFFVKKEKIRTYCSWTTNIPSIAWDDNWDFRAPTAIIK
PLKEGSSPEKENEYNEKLEKLKPKASRHFLLIRHGQYNLNGLTDKERVLTKLGREQAIKT
GQRLKELEFPISQFAISTMTRAQETANLIMEQLPEKLKFEKIHDSMLEEGAVSTN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g10351.t3 | CDD | cd07067 | HP_PGM_like | 88 | 155 | 4.488E-17 |
| 5 | g10351.t3 | Gene3D | G3DSA:3.40.50.1240 | - | 77 | 174 | 2.3E-22 |
| 2 | g10351.t3 | PANTHER | PTHR20935 | PHOSPHOGLYCERATE MUTASE-RELATED | 29 | 171 | 2.9E-39 |
| 3 | g10351.t3 | PANTHER | PTHR20935:SF0 | SERINE/THREONINE-PROTEIN PHOSPHATASE PGAM5, MITOCHONDRIAL | 29 | 171 | 2.9E-39 |
| 1 | g10351.t3 | Pfam | PF00300 | Histidine phosphatase superfamily (branch 1) | 89 | 159 | 4.7E-11 |
| 7 | g10351.t3 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 23 | - |
| 8 | g10351.t3 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 9 | - |
| 9 | g10351.t3 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 10 | 18 | - |
| 10 | g10351.t3 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 19 | 23 | - |
| 6 | g10351.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 24 | 175 | - |
| 4 | g10351.t3 | SUPERFAMILY | SSF53254 | Phosphoglycerate mutase-like | 87 | 161 | 3.8E-17 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
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