General information for g11672.t3
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.t3 | TTS | g11672.t3 | 17734070 | 17734070 |
| chr_1 | g11672 | g11672.t3 | isoform | g11672.t3 | 17734286 | 17736136 |
| chr_1 | g11672 | g11672.t3 | exon | g11672.t3.exon1 | 17734286 | 17735931 |
| chr_1 | g11672 | g11672.t3 | cds | g11672.t3.CDS1 | 17734286 | 17735931 |
| chr_1 | g11672 | g11672.t3 | exon | g11672.t3.exon2 | 17736008 | 17736136 |
| chr_1 | g11672 | g11672.t3 | cds | g11672.t3.CDS2 | 17736008 | 17736077 |
| chr_1 | g11672 | g11672.t3 | TSS | g11672.t3 | NA | NA |
Sequences
>g11672.t3 Gene=g11672 Length=1775
GACATCCAACATCATGTGCATCGATTGCAGAAATTCTCTCAGTCTTATTTTTCAATTCTA
TGCGTTATAAAATAAGTGCACCACGTGATGCAGCAGCAGACCGTTTTGTTCTATCAAAGG
GTCATGCAGCTCCAATATTGTATGCTGCATGGGCTGAAGCTGGTCTTTTTCCAATAAGTG
AATTGCAAAATTTGCGTAAAATAGATTCTGATTTAGAAGGACACCCAACTCCACGCTTAC
CATTTATTGACGTTGGAACGGGATCATTAGGTCAAGGTCTTTCGATTGGCGCTGGAATGG
CATACGTTGGAAAAAATTATGATAAAGCGAGTTATAGAACTTATGTACTCGTCGGAGATG
GAGAATCTGCTGAAGGCTCGATATGGGAAGCTTTACATTTTGCTGGTCATTACAAATTAG
ATAATTTGTGTGTGATTTTTGATGTCAATCGTTTAGGACAATCAGAACCAACATCTTTAC
AACATCAAATGGAAACATATCGTAAACGTTTGGATGCTTTTGGATTAAATGCCATTGTTG
TCGATGGACATGACGTTGAAGAACTTTGTCGTGCATTTTACGAAGCAGAGCAAACAAAAG
GTCGACCAACTGCTATAATTGCAAAGACATTTAAGGGTAAATATTTCCCAAATATTGAAG
ATCTCGAGAACTGGCATGGAAAACCATTAGGTGCCAATGCTGAAGCTGTAATCAAGCATT
TGGAAAGTCTTATTAAAAACAAAGGCGCATTGACTTTACAAGCTCAATCTCCTCTAGATG
AGCCACCAACTGTTTCATTGTCTGATGTTACACTTTCATCGCCACCTGCTTATAAACTAG
GAGAACAAGTTGCTACTCGTCTTGCATATGGAACAGCTTTGGCAAAAATTGGAGCTTCTA
ATGATCGCGTTATTGCTCTAGATGGTGACACTAAAAATTCAACTTATTCTGAAAAATTAA
AAAAAGCATTTCCTGAACGCTATATCGAATGTTTCATTGCCGAACAGAATCTCGTTGGAG
TTGCAGTTGGCACTGCCTGTCGTGATCGTACAATAGCATTTGTATCAACATTTGCAACAT
TCTTTACAAGAGCATTCGATCAAATCAGAATGGCTGCAATCAGTCAATCTAACGTCAACT
TTGTTGGTTCACATTGTGGTGTATCAATCGGAGAAGATGGTCCATCTCAAATGGGATTGG
AAGATCTTGCTTTATTCCGTTCGATTCCTGGTTCAACTGTTTTTTATCCATCAGATGCTG
TCTCTACAGAGCGTGCTGTTGAGCTTGCAGCAAACACTAAAGGCATTTGCTATATTCGTA
CATCTCGTCCAAATACTGAGGTCATTTATGCAAACGATGCTTCATTGCAAATTGGAAAGG
CACGAGTCATTAAACATTCTGCTAATGATCAAGTTTTACTTATTGGCGCATGTGTAACAT
TATATGAATCCCTAAAGGCAGCAAAAGAATTAGAAGGACTTGGTGTAAATGCACGCGTTT
TAGATCCATTTACTATCAAGCCTATTGATCGTGATGGAATAATTGCTAATGCACAAGAAT
GTGGAGGCCGAATTGTTGTTGTTGAGGATCATTATCGTGAAGGTGGTTTGGGAGAAGCAG
TGCTCTCAGCAGTTGCAGATCAACGAAATATTGTTGTCAAGCATCTCTTCGTTCCAACAG
TACCTCGTTCAGGTCCACCAGCTGTTTTGATTGATACATTTGGCATCAGTTCACGTCATA
TTATTGCAGCCGCACAAGACATTTTAAAATTGTAA
>g11672.t3 Gene=g11672 Length=571
MRYKISAPRDAAADRFVLSKGHAAPILYAAWAEAGLFPISELQNLRKIDSDLEGHPTPRL
PFIDVGTGSLGQGLSIGAGMAYVGKNYDKASYRTYVLVGDGESAEGSIWEALHFAGHYKL
DNLCVIFDVNRLGQSEPTSLQHQMETYRKRLDAFGLNAIVVDGHDVEELCRAFYEAEQTK
GRPTAIIAKTFKGKYFPNIEDLENWHGKPLGANAEAVIKHLESLIKNKGALTLQAQSPLD
EPPTVSLSDVTLSSPPAYKLGEQVATRLAYGTALAKIGASNDRVIALDGDTKNSTYSEKL
KKAFPERYIECFIAEQNLVGVAVGTACRDRTIAFVSTFATFFTRAFDQIRMAAISQSNVN
FVGSHCGVSIGEDGPSQMGLEDLALFRSIPGSTVFYPSDAVSTERAVELAANTKGICYIR
TSRPNTEVIYANDASLQIGKARVIKHSANDQVLLIGACVTLYESLKAAKELEGLGVNARV
LDPFTIKPIDRDGIIANAQECGGRIVVVEDHYREGGLGEAVLSAVADQRNIVVKHLFVPT
VPRSGPPAVLIDTFGISSRHIIAAAQDILKL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 14 | g11672.t3 | CDD | cd02012 | TPP_TK | 1 | 212 | 1.02024E-114 |
| 15 | g11672.t3 | CDD | cd07033 | TPP_PYR_DXS_TK_like | 269 | 423 | 8.56926E-70 |
| 12 | g11672.t3 | Gene3D | G3DSA:3.40.50.970 | - | 1 | 243 | 6.9E-83 |
| 11 | g11672.t3 | Gene3D | G3DSA:3.40.50.970 | - | 245 | 438 | 2.1E-70 |
| 13 | g11672.t3 | Gene3D | G3DSA:3.40.50.920 | - | 439 | 571 | 6.2E-36 |
| 4 | g11672.t3 | PANTHER | PTHR43195 | TRANSKETOLASE | 1 | 569 | 4.8E-289 |
| 5 | g11672.t3 | PANTHER | PTHR43195:SF1 | FI06132P-RELATED | 1 | 569 | 4.8E-289 |
| 3 | g11672.t3 | Pfam | PF00456 | Transketolase, thiamine diphosphate binding domain | 11 | 218 | 1.3E-36 |
| 2 | g11672.t3 | Pfam | PF02779 | Transketolase, pyrimidine binding domain | 263 | 426 | 3.6E-40 |
| 1 | g11672.t3 | Pfam | PF02780 | Transketolase, C-terminal domain | 440 | 561 | 1.4E-26 |
| 10 | g11672.t3 | ProSitePatterns | PS00802 | Transketolase signature 2. | 371 | 387 | - |
| 9 | g11672.t3 | SMART | SM00861 | Transket_pyr_3 | 264 | 428 | 2.6E-49 |
| 6 | g11672.t3 | SUPERFAMILY | SSF52518 | Thiamin diphosphate-binding fold (THDP-binding) | 10 | 222 | 1.33E-72 |
| 7 | g11672.t3 | SUPERFAMILY | SSF52518 | Thiamin diphosphate-binding fold (THDP-binding) | 250 | 429 | 1.26E-55 |
| 8 | g11672.t3 | SUPERFAMILY | SSF52922 | TK C-terminal domain-like | 436 | 570 | 9.03E-25 |
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 transcript has been annotated with K00615 (transketolase)
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.
