General information for g12728.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Aldo-keto reductase family 1 member A1-A.
Parent gene
- The parent gene g12728 is located on chr_1: 25507881..25508906 (- 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 | g12728 | g12728.t3 | isoform | g12728.t3 | 25507377 | 25508156 |
| chr_1 | g12728 | g12728.t3 | exon | g12728.t3.exon1 | 25507377 | 25507427 |
| chr_1 | g12728 | g12728.t3 | TTS | g12728.t3 | 25507381 | 25507381 |
| chr_1 | g12728 | g12728.t3 | cds | g12728.t3.CDS1 | 25507414 | 25507427 |
| chr_1 | g12728 | g12728.t3 | exon | g12728.t3.exon2 | 25507520 | 25507765 |
| chr_1 | g12728 | g12728.t3 | cds | g12728.t3.CDS2 | 25507520 | 25507765 |
| chr_1 | g12728 | g12728.t3 | exon | g12728.t3.exon3 | 25507838 | 25508156 |
| chr_1 | g12728 | g12728.t3 | cds | g12728.t3.CDS3 | 25507838 | 25508153 |
| chr_1 | g12728 | g12728.t3 | TSS | g12728.t3 | 25508972 | 25508972 |
Sequences
>g12728.t3 Gene=g12728 Length=616
CTCATGCATTGGCCTATTTGTTATCAAAAATCAACTGAATTGTTCCCAAAGAATGAAGCT
GGTGAAATTTTGCACGCTAATTTTGATATTCTTGACACTTATCGTGCAATGGAGGAACTT
GTTGATGCTGGATTGACTAAAAGTATTGGAATTTCAAACTTCAATATCAAACAAGTTGAG
TACATTACTAAAAATGCTCGCATCCAACCAGTCACCAATCAAGTTGAATGCAATCCATAT
TTACTTAATAAAGAATTAAGTGATTTCTGCAAAAGTAAAAACATTGTCATCACCGCTTAT
TCACCTCTTGGTTCACCAGGTCGTCCATGGGCAACACCAGATGACCGAGTATTATTAAAA
GAACCAAAACTTTTAGAGATCGCTCAGAAGCACAATAAAACACCAGCACAAATTTTAATC
CGTTACCAAATTCAACGCGGTCACGTTGTCATACCGAAATCAGTTACGAAGGATCGCATA
ATCAGTAATTTTGATGTTTTCAACTTCACATTGAGCGATTCTGAAATAAAAGATTTGGAA
AACTTCAACTATACTGAGCGCATTTTATCAAAAAAATGAAATAAATGTGGAACACACAGT
TTCTTTTCAAATAAAA
>g12728.t3 Gene=g12728 Length=191
MHWPICYQKSTELFPKNEAGEILHANFDILDTYRAMEELVDAGLTKSIGISNFNIKQVEY
ITKNARIQPVTNQVECNPYLLNKELSDFCKSKNIVITAYSPLGSPGRPWATPDDRVLLKE
PKLLEIAQKHNKTPAQILIRYQIQRGHVVIPKSVTKDRIISNFDVFNFTLSDSEIKDLEN
FNYTERILSKK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g12728.t3 | Gene3D | G3DSA:3.20.20.100 | - | 1 | 191 | 7.3E-76 |
| 2 | g12728.t3 | PANTHER | PTHR11732:SF402 | ALDO-KETO REDUCTASE FAMILY 1 MEMBER A1-A | 1 | 188 | 4.9E-68 |
| 3 | g12728.t3 | PANTHER | PTHR11732 | ALDO/KETO REDUCTASE | 1 | 188 | 4.9E-68 |
| 4 | g12728.t3 | PRINTS | PR00069 | Aldo-keto reductase signature | 36 | 53 | 5.7E-33 |
| 6 | g12728.t3 | PRINTS | PR00069 | Aldo-keto reductase signature | 70 | 99 | 5.7E-33 |
| 5 | g12728.t3 | PRINTS | PR00069 | Aldo-keto reductase signature | 117 | 141 | 5.7E-33 |
| 1 | g12728.t3 | Pfam | PF00248 | Aldo/keto reductase family | 2 | 180 | 8.2E-31 |
| 8 | g12728.t3 | ProSitePatterns | PS00062 | Aldo/keto reductase family signature 2. | 36 | 53 | - |
| 9 | g12728.t3 | ProSitePatterns | PS00063 | Aldo/keto reductase family putative active site signature. | 150 | 165 | - |
| 7 | g12728.t3 | SUPERFAMILY | SSF51430 | NAD(P)-linked oxidoreductase | 1 | 185 | 1.96E-55 |
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:0047834 | D-threo-aldose 1-dehydrogenase activity | MF |
| GO:0055114 | NA | NA |
| GO:0016491 | oxidoreductase activity | MF |
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