General information for g11672.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Transketolase-like protein 2.
Parent gene
- The parent gene g11672 is located on chr_1: 17734905..17737163 (- 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 | g11672 | g11672.t2 | isoform | g11672.t2 | 17734025 | 17734905 |
| chr_1 | g11672 | g11672.t2 | exon | g11672.t2.exon1 | 17734025 | 17734905 |
| chr_1 | g11672 | g11672.t2 | TTS | g11672.t2 | 17734070 | 17734070 |
| chr_1 | g11672 | g11672.t2 | cds | g11672.t2.CDS1 | 17734286 | 17734870 |
| chr_1 | g11672 | g11672.t2 | TSS | g11672.t2 | NA | NA |
Sequences
>g11672.t2 Gene=g11672 Length=881
GTGGTGTATCAATCGGAGAAGATGGTCCATCTCAAATGGGATTGGAAGATCTTGCTTTAT
TCCGTTCGATTCCTGGTTCAACTGTTTTTTATCCATCAGATGCTGTCTCTACAGAGCGTG
CTGTTGAGCTTGCAGCAAACACTAAAGGCATTTGCTATATTCGTACATCTCGTCCAAATA
CTGAGGTCATTTATGCAAACGATGCTTCATTGCAAATTGGAAAGGCACGAGTCATTAAAC
ATTCTGCTAATGATCAAGTTTTACTTATTGGCGCATGTGTAACATTATATGAATCCCTAA
AGGCAGCAAAAGAATTAGAAGGACTTGGTGTAAATGCACGCGTTTTAGATCCATTTACTA
TCAAGCCTATTGATCGTGATGGAATAATTGCTAATGCACAAGAATGTGGAGGCCGAATTG
TTGTTGTTGAGGATCATTATCGTGAAGGTGGTTTGGGAGAAGCAGTGCTCTCAGCAGTTG
CAGATCAACGAAATATTGTTGTCAAGCATCTCTTCGTTCCAACAGTACCTCGTTCAGGTC
CACCAGCTGTTTTGATTGATACATTTGGCATCAGTTCACGTCATATTATTGCAGCCGCAC
AAGACATTTTAAAATTGTAAAAGGAATAGCTAATTCTATTTAGAAATTATGCTACTATAT
TATACACTGCTTCAAAAGTTTACTCTCCTTAATTCTCAAAAAATGCATTTATAAAAGAGA
TAATTGGACATTCCCTATATCAGATATAATTTGGCCATTCCTATTTTAGATCATGCATTG
TTAAAACAATATTTGGTTGGGTAATAAAAAAAATTTTTATATGCTTCTTTTTAAAATAAA
ATAGACCTTTTTATTATGCTTTATAAATAAGCATACATTTT
>g11672.t2 Gene=g11672 Length=194
MGLEDLALFRSIPGSTVFYPSDAVSTERAVELAANTKGICYIRTSRPNTEVIYANDASLQ
IGKARVIKHSANDQVLLIGACVTLYESLKAAKELEGLGVNARVLDPFTIKPIDRDGIIAN
AQECGGRIVVVEDHYREGGLGEAVLSAVADQRNIVVKHLFVPTVPRSGPPAVLIDTFGIS
SRHIIAAAQDILKL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g11672.t2 | Gene3D | G3DSA:3.40.50.970 | - | 1 | 61 | 0e+00 |
| 7 | g11672.t2 | Gene3D | G3DSA:3.40.50.920 | - | 62 | 194 | 0e+00 |
| 3 | g11672.t2 | PANTHER | PTHR43195 | TRANSKETOLASE | 1 | 192 | 0e+00 |
| 2 | g11672.t2 | Pfam | PF02779 | Transketolase, pyrimidine binding domain | 2 | 49 | 2e-07 |
| 1 | g11672.t2 | Pfam | PF02780 | Transketolase, C-terminal domain | 63 | 184 | 0e+00 |
| 4 | g11672.t2 | SUPERFAMILY | SSF52518 | Thiamin diphosphate-binding fold (THDP-binding) | 1 | 51 | 0e+00 |
| 5 | g11672.t2 | SUPERFAMILY | SSF52922 | TK C-terminal domain-like | 59 | 193 | 0e+00 |
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:0003824 | catalytic 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.
