General information for g2272.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative hydroxypyruvate isomerase.
Parent gene
- The parent gene g2272 is located on chr_3: 16357126..16361064 (+ 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 | g2272 | g2272.t1 | TSS | g2272.t1 | 16356096 | 16356096 |
| chr_3 | g2272 | g2272.t1 | isoform | g2272.t1 | 16356224 | 16357126 |
| chr_3 | g2272 | g2272.t1 | exon | g2272.t1.exon1 | 16356224 | 16356427 |
| chr_3 | g2272 | g2272.t1 | cds | g2272.t1.CDS1 | 16356224 | 16356427 |
| chr_3 | g2272 | g2272.t1 | exon | g2272.t1.exon2 | 16356485 | 16356576 |
| chr_3 | g2272 | g2272.t1 | cds | g2272.t1.CDS2 | 16356485 | 16356576 |
| chr_3 | g2272 | g2272.t1 | exon | g2272.t1.exon3 | 16356643 | 16357126 |
| chr_3 | g2272 | g2272.t1 | cds | g2272.t1.CDS3 | 16356643 | 16357126 |
| chr_3 | g2272 | g2272.t1 | TTS | g2272.t1 | 16357725 | 16357725 |
Sequences
>g2272.t1 Gene=g2272 Length=780
ATGAAATTCAGTGCAAATTTAGGATTTCTTTTTCCTGAAGCGACTACGATAATTGAACAA
TATCAATTATCCAAAGCAGCAGGATTTAAAGCTGTTGAACATCCTTTTCCTCAAAATGTA
GATCATGCAAAGTTACTTGAAATTAAGAATGAAACTGGTTTGAAAGTTGCATTAGTAAAT
ATACAATTAAATGAAGATACTAAATTCGGATGTGCTTCATTGCCTGATAAAAGAGAAGTT
TTTAAACAAAATTTTCAAACAACTTTGAATTTTGCAAAAATCTTTGATTGCAAAAAAATT
CATTTAATGAGCGGAAAAATTGATGGTACAGTTACTCAAGAGAATCGTGACACATTTTTT
GCCAATTTAAAATATGCACTTCCATATCTAGAAAAGGAGGGAATCACTGGAATTATTGAA
CCAATAAATAAATATTCTGTGCCTGGTTATTTTCTTAATGATTTCAAATTTGCAGTTGAA
ACGATCAAGTCACTTGGAAGTAAAAATCTAAAATTGATGGTTGACATTTTTCATTTACAA
ATGATACAAGGAAATGTAATTAATTCTTTGAAAGATTTTCTTCCGTATATGGGGCACATA
CAAATTGCTCAAGCACCTGACAGAAATGAACCTAACTCAAGTGGAGAACTTAACTACAAA
TTCATATTAGCTGAACTTGAAAAACTTGGTTATGATGATTTTGTAGGTCTCGAGTATAAA
CCATTAACAACAACAGTTGAAGGTCTAAAATGGATTAGTGAATATGAACTAAAATTATAA
>g2272.t1 Gene=g2272 Length=259
MKFSANLGFLFPEATTIIEQYQLSKAAGFKAVEHPFPQNVDHAKLLEIKNETGLKVALVN
IQLNEDTKFGCASLPDKREVFKQNFQTTLNFAKIFDCKKIHLMSGKIDGTVTQENRDTFF
ANLKYALPYLEKEGITGIIEPINKYSVPGYFLNDFKFAVETIKSLGSKNLKLMVDIFHLQ
MIQGNVINSLKDFLPYMGHIQIAQAPDRNEPNSSGELNYKFILAELEKLGYDDFVGLEYK
PLTTTVEGLKWISEYELKL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g2272.t1 | Gene3D | G3DSA:3.20.20.150 | - | 1 | 258 | 0 |
| 2 | g2272.t1 | PANTHER | PTHR43489:SF6 | HYDROXYPYRUVATE ISOMERASE-RELATED | 1 | 256 | 0 |
| 3 | g2272.t1 | PANTHER | PTHR43489 | ISOMERASE | 1 | 256 | 0 |
| 6 | g2272.t1 | PIRSF | PIRSF006241 | HyI | 1 | 258 | 0 |
| 1 | g2272.t1 | Pfam | PF01261 | Xylose isomerase-like TIM barrel | 23 | 254 | 0 |
| 4 | g2272.t1 | SUPERFAMILY | SSF51658 | Xylose isomerase-like | 1 | 255 | 0 |
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 transcript has been annotated with K01816 (hydroxypyruvate isomerase)
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.
