General information for g12123.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Peroxisomal multifunctional enzyme type 2.
Parent gene
- The parent gene g12123 is located on chr_1: 21153582..21154814 (+ 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 | g12123 | g12123.t3 | TSS | g12123.t3 | 21150894 | 21150894 |
| chr_1 | g12123 | g12123.t3 | isoform | g12123.t3 | 21150983 | 21152171 |
| chr_1 | g12123 | g12123.t3 | exon | g12123.t3.exon1 | 21150983 | 21150989 |
| chr_1 | g12123 | g12123.t3 | exon | g12123.t3.exon2 | 21151266 | 21151566 |
| chr_1 | g12123 | g12123.t3 | cds | g12123.t3.CDS1 | 21151279 | 21151566 |
| chr_1 | g12123 | g12123.t3 | exon | g12123.t3.exon3 | 21151623 | 21151879 |
| chr_1 | g12123 | g12123.t3 | cds | g12123.t3.CDS2 | 21151623 | 21151879 |
| chr_1 | g12123 | g12123.t3 | exon | g12123.t3.exon4 | 21152021 | 21152171 |
| chr_1 | g12123 | g12123.t3 | cds | g12123.t3.CDS3 | 21152021 | 21152045 |
| chr_1 | g12123 | g12123.t3 | TTS | g12123.t3 | NA | NA |
Sequences
>g12123.t3 Gene=g12123 Length=716
ACGAAAGTCCTTCTGCAATCATGGTTTTGAGATTTGACAATCGTGTTGTTGTTGTAACTG
GTGCAGGTGCTGGTTTAGGTAGAGAATATGCACTTTTATTTGGCAAGCGTGGTGCTAAAG
TGGTTGTGAACGATCTTGGTGGCAATTTTCATGGTGAAGGAAACTCATCTAGAGCTGCAG
ACTTGGTTGTAGAAGAAATTAGAAAACTTGGAGGAACAGCAGTTGCTGATTACAATAGTG
TCGTCGAAGGACATAAAATTATTGAAACTGCAATTTCAAATTATGGACGCATTGATGTGC
TTGTTAATAATGCCGGAATTCTTCGTGATAAATCAATTGCCAACATCTCGGATAATGACT
GGAATTTAATTCATGATGTTCACTTAAAGGGAAGCTTCATGACAACTCGTGCTGCTTGGC
CATACTTTAAAAAACAAAAGTTCGGTCGTATTATAATGACCACCAGTAATAGTGGAATTT
ATGGAAATTTCGGTCAAGCTAACTATTCAGCAGCAAAGCTCGGTTTAATTGGATTAGCTA
ACACAGTTGCAATTGAAGGTGACTATATGATAATATTAATTTTTAAATAGCTGCATCAAG
AATGACAAAAGGTATTTTACCTGATGATCTATTTGATGAAATGAAACCAGAATTGATTGC
ACCAGTAGTGGTTTACTTATGTCATGAAGACACAATGGATAATGGTCAAGTCATTG
>g12123.t3 Gene=g12123 Length=189
MVLRFDNRVVVVTGAGAGLGREYALLFGKRGAKVVVNDLGGNFHGEGNSSRAADLVVEEI
RKLGGTAVADYNSVVEGHKIIETAISNYGRIDVLVNNAGILRDKSIANISDNDWNLIHDV
HLKGSFMTTRAAWPYFKKQKFGRIIMTTSNSGIYGNFGQANYSAAKLGLIGLANTVAIEG
DYMIILIFK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 13 | g12123.t3 | Gene3D | G3DSA:3.40.50.720 | - | 8 | 185 | 1.6E-55 |
| 2 | g12123.t3 | PANTHER | PTHR45024 | DEHYDROGENASES, SHORT CHAIN | 2 | 185 | 1.2E-95 |
| 6 | g12123.t3 | PRINTS | PR00081 | Glucose/ribitol dehydrogenase family signature | 9 | 26 | 1.1E-20 |
| 4 | g12123.t3 | PRINTS | PR00080 | Short-chain dehydrogenase/reductase (SDR) superfamily signature | 89 | 100 | 5.0E-9 |
| 9 | g12123.t3 | PRINTS | PR00081 | Glucose/ribitol dehydrogenase family signature | 89 | 100 | 1.1E-20 |
| 7 | g12123.t3 | PRINTS | PR00081 | Glucose/ribitol dehydrogenase family signature | 136 | 152 | 1.1E-20 |
| 5 | g12123.t3 | PRINTS | PR00080 | Short-chain dehydrogenase/reductase (SDR) superfamily signature | 142 | 150 | 5.0E-9 |
| 3 | g12123.t3 | PRINTS | PR00080 | Short-chain dehydrogenase/reductase (SDR) superfamily signature | 162 | 181 | 5.0E-9 |
| 8 | g12123.t3 | PRINTS | PR00081 | Glucose/ribitol dehydrogenase family signature | 162 | 181 | 1.1E-20 |
| 1 | g12123.t3 | Pfam | PF00106 | short chain dehydrogenase | 8 | 180 | 2.0E-35 |
| 12 | g12123.t3 | ProSitePatterns | PS00061 | Short-chain dehydrogenases/reductases family signature. | 149 | 177 | - |
| 11 | g12123.t3 | SMART | SM00822 | This enzymatic domain is part of bacterial polyketide synthases and catalyses the first step in the reductive modification of the beta-carbonyl centres in the growing polyketide chain. It uses NADPH to reduce the keto group to a hydroxy group. | 8 | 183 | 0.0036 |
| 10 | g12123.t3 | SUPERFAMILY | SSF51735 | NAD(P)-binding Rossmann-fold domains | 1 | 179 | 2.41E-49 |
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: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.
