General information for g11672.t4
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.t4 | TTS | g11672.t4 | 17734070 | 17734070 |
| chr_1 | g11672 | g11672.t4 | isoform | g11672.t4 | 17734905 | 17735917 |
| chr_1 | g11672 | g11672.t4 | exon | g11672.t4.exon1 | 17734905 | 17735917 |
| chr_1 | g11672 | g11672.t4 | cds | g11672.t4.CDS1 | 17734907 | 17735764 |
| chr_1 | g11672 | g11672.t4 | TSS | g11672.t4 | NA | NA |
Sequences
>g11672.t4 Gene=g11672 Length=1013
GCTGCATGGGCTGAAGCTGGTCTTTTTCCAATAAGTGAATTGCAAAATTTGCGTAAAATA
GATTCTGATTTAGAAGGACACCCAACTCCACGCTTACCATTTATTGACGTTGGAACGGGA
TCATTAGGTCAAGGTCTTTCGATTGGCGCTGGAATGGCATACGTTGGAAAAAATTATGAT
AAAGCGAGTTATAGAACTTATGTACTCGTCGGAGATGGAGAATCTGCTGAAGGCTCGATA
TGGGAAGCTTTACATTTTGCTGGTCATTACAAATTAGATAATTTGTGTGTGATTTTTGAT
GTCAATCGTTTAGGACAATCAGAACCAACATCTTTACAACATCAAATGGAAACATATCGT
AAACGTTTGGATGCTTTTGGATTAAATGCCATTGTTGTCGATGGACATGACGTTGAAGAA
CTTTGTCGTGCATTTTACGAAGCAGAGCAAACAAAAGGTCGACCAACTGCTATAATTGCA
AAGACATTTAAGGGTAAATATTTCCCAAATATTGAAGATCTCGAGAACTGGCATGGAAAA
CCATTAGGTGCCAATGCTGAAGCTGTAATCAAGCATTTGGAAAGTCTTATTAAAAACAAA
GGCGCATTGACTTTACAAGCTCAATCTCCTCTAGATGAGCCACCAACTGTTTCATTGTCT
GATGTTACACTTTCATCGCCACCTGCTTATAAACTAGGAGAACAAGTTGCTACTCGTCTT
GCATATGGAACAGCTTTGGCAAAAATTGGAGCTTCTAATGATCGCGTTATTGCTCTAGAT
GGTGACACTAAAAATTCAACTTATTCTGAAAAATTAAAAAAAGCATTTCCTGAACGCTAT
ATCGAATGTTTCATTGCCGAACAGAATCTCGTTGGAGTTGCAGTTGGCACTGCCTGTCGT
GATCGTACAATAGCATTTGTATCAACATTTGCAACATTCTTTACAAGAGCATTCGATCAA
ATCAGAATGGCTGCAATCAGTCAATCTAACGTCAACTTTGTTGGTTCACATTG
>g11672.t4 Gene=g11672 Length=286
MAYVGKNYDKASYRTYVLVGDGESAEGSIWEALHFAGHYKLDNLCVIFDVNRLGQSEPTS
LQHQMETYRKRLDAFGLNAIVVDGHDVEELCRAFYEAEQTKGRPTAIIAKTFKGKYFPNI
EDLENWHGKPLGANAEAVIKHLESLIKNKGALTLQAQSPLDEPPTVSLSDVTLSSPPAYK
LGEQVATRLAYGTALAKIGASNDRVIALDGDTKNSTYSEKLKKAFPERYIECFIAEQNLV
GVAVGTACRDRTIAFVSTFATFFTRAFDQIRMAAISQSNVNFVGSH
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g11672.t4 | CDD | cd07033 | TPP_PYR_DXS_TK_like | 190 | 286 | 0 |
| 7 | g11672.t4 | Gene3D | G3DSA:3.40.50.970 | - | 1 | 164 | 0 |
| 6 | g11672.t4 | Gene3D | G3DSA:3.40.50.970 | - | 166 | 286 | 0 |
| 3 | g11672.t4 | PANTHER | PTHR43195 | TRANSKETOLASE | 1 | 286 | 0 |
| 2 | g11672.t4 | Pfam | PF00456 | Transketolase, thiamine diphosphate binding domain | 8 | 139 | 0 |
| 1 | g11672.t4 | Pfam | PF02779 | Transketolase, pyrimidine binding domain | 184 | 284 | 0 |
| 5 | g11672.t4 | SUPERFAMILY | SSF52518 | Thiamin diphosphate-binding fold (THDP-binding) | 1 | 142 | 0 |
| 4 | g11672.t4 | SUPERFAMILY | SSF52518 | Thiamin diphosphate-binding fold (THDP-binding) | 171 | 286 | 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 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.
