General information for g10350.t5
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 g10350 is located on chr_1: 9053551..9057177 (- 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 | g10350 | g10350.t5 | TTS | g10350.t5 | 9052259 | 9052259 |
| chr_1 | g10350 | g10350.t5 | isoform | g10350.t5 | 9052992 | 9054623 |
| chr_1 | g10350 | g10350.t5 | exon | g10350.t5.exon1 | 9052992 | 9054254 |
| chr_1 | g10350 | g10350.t5 | cds | g10350.t5.CDS1 | 9052994 | 9053551 |
| chr_1 | g10350 | g10350.t5 | exon | g10350.t5.exon2 | 9054310 | 9054623 |
| chr_1 | g10350 | g10350.t5 | TSS | g10350.t5 | NA | NA |
Sequences
>g10350.t5 Gene=g10350 Length=1577
TTAGGATTGTGTTACATGTGATTTAGGCATATAGCCACAATCTCCAAAAAATCTTAAAAC
AACCCTTCCACTCGGATAGACAACAATCCAAGTGATTGAAGCATGATGTATACCTAATCG
AAGCCAAGCTTGTGGCGGGAGCTGAAGCGCTCTACATACAAAATAACGAATTACATTTCC
ATGACAAACTATGGCAGTATATGAATCTTTTTCTTGCTCTGGATCAGCACGATGAATGTA
TTTTCTAAATGCCGCCTCAATTCTTGCTCCTTCAGTGAAGAATTCGTGCTCTTCAGGATT
CCAATATTCAATTGGTACCTGGCTTGCACACTGCACCCTCTTCAAGCATTGAATCATGTA
TCTTTTCAAACTTTAGCTTTTCTGGAAGTTGTTCCATTATTAAATTAGCTGTTTCTTGTG
CACGTGTCATAGTCGAAATTGCAAACTGAGATATAGGAAATTCTAATTCCTTCAAACGTT
GACCAGTTTTAATTGCCTGCTCTCGACCAAGTTTGGTCAATACTCTTTCTTTGTCTGTAA
GGCCATTAAGATTGTATTGACCATGTCTTATTAGAAGAAAATGTCTTGATGCCTTAGGTT
TTAATTTCTCAAGTTTTTCATTGTACTCATTTTCTTTTTCTGGACTAGAACCTTCTTTTA
AAGGCTTAATAATTGCAGTCGGAGCTCGAAAATCCCAATTATCATCCCAAGCTATTGATG
GAATGTTTGTTGTCCATGAACAATATGTTCTAATTTTTTCTTTTTTCACAAAAAATGCTA
ATGAAACTGCACTGCAAGAATAGCAAACTAGTGTTGCTGACTGCTTTAAAAACTTTGAAT
ACATTTTAAAATGCTACTTAGAACAAATTTTCACGACTTTTCTGTCACGACTGAGCACTT
TTTGAGTATGTCGAAAAAGAAAATGAAAGATGATAAAAAAGAAAACTGTAAACAAAACAG
TCGCAAACAAGATATCGAGTGAATATTTTTACTCTATAGAATTTATTATTTTATAAGATG
TCTTGGAGATATTTTAAGCCATTTTCAAGTGTAAGCTATTATACGATTACTGGTGCTTCA
TTATACTTTTTATTAAAAGATGAGAAATTCAAAATTGTTGAAAATTCGAACAAATCTGAA
ACAAATAAATTTCCTGAATTTGACTTGAATTGGGATCATAGAGCAGAAACTGCACTCGTA
AAACCATTTAAGGATGGTTCAAATGCTAGCAAGCAAAAGAGTTATAGTGAAAAATTGGAA
AAATATCGCTCGCGAGCTGTTCGGCATATATTACTAATAAGACATGGACAATATTTTCTT
AATGGAACAACAGATAAAGAAAGAGTGCTTACACAATTGGGAAGGGAACAAGCAAAAATG
ACTGGAAATCGTCTAAAAGAATTGGATATTAAGATAACTGAAGCTGTTGTTTCTACTATG
ACACGAGCTAAAGAAACTGCCAATATTTTGCTCAATCAGTTGCCTCAAGCAAAGCAATTG
GAATTGAAAATTGATTCAATTCTTGAAGAAGGTGCACCCTTAGGTCCTGAACCTAAATTT
GGTAGTTGGAGGCCCAT
>g10350.t5 Gene=g10350 Length=186
MSWRYFKPFSSVSYYTITGASLYFLLKDEKFKIVENSNKSETNKFPEFDLNWDHRAETAL
VKPFKDGSNASKQKSYSEKLEKYRSRAVRHILLIRHGQYFLNGTTDKERVLTQLGREQAK
MTGNRLKELDIKITEAVVSTMTRAKETANILLNQLPQAKQLELKIDSILEEGAPLGPEPK
FGSWRP
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g10350.t5 | CDD | cd07067 | HP_PGM_like | 90 | 159 | 9.8749E-21 |
| 5 | g10350.t5 | Gene3D | G3DSA:3.40.50.1240 | - | 79 | 186 | 2.7E-25 |
| 2 | g10350.t5 | PANTHER | PTHR20935 | PHOSPHOGLYCERATE MUTASE-RELATED | 46 | 186 | 5.9E-39 |
| 3 | g10350.t5 | PANTHER | PTHR20935:SF0 | SERINE/THREONINE-PROTEIN PHOSPHATASE PGAM5, MITOCHONDRIAL | 46 | 186 | 5.9E-39 |
| 1 | g10350.t5 | Pfam | PF00300 | Histidine phosphatase superfamily (branch 1) | 91 | 171 | 2.7E-12 |
| 7 | g10350.t5 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 5 | - |
| 8 | g10350.t5 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 6 | 26 | - |
| 6 | g10350.t5 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 27 | 186 | - |
| 4 | g10350.t5 | SUPERFAMILY | SSF53254 | Phosphoglycerate mutase-like | 89 | 171 | 1.57E-19 |
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.
