General information for g6936.t37
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Triosephosphate isomerase.
Parent gene
- The parent gene g6936 is located on chr_2: 20044463..20045782 (+ 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_2 | g6936 | g6936.t37 | isoform | g6936.t37 | 20044082 | 20045161 |
| chr_2 | g6936 | g6936.t37 | exon | g6936.t37.exon1 | 20044082 | 20044117 |
| chr_2 | g6936 | g6936.t37 | exon | g6936.t37.exon2 | 20044247 | 20044376 |
| chr_2 | g6936 | g6936.t37 | exon | g6936.t37.exon3 | 20044463 | 20044540 |
| chr_2 | g6936 | g6936.t37 | cds | g6936.t37.CDS1 | 20044474 | 20044540 |
| chr_2 | g6936 | g6936.t37 | exon | g6936.t37.exon4 | 20044611 | 20045161 |
| chr_2 | g6936 | g6936.t37 | cds | g6936.t37.CDS2 | 20044611 | 20045161 |
| chr_2 | g6936 | g6936.t37 | TTS | g6936.t37 | 20045299 | 20045299 |
| chr_2 | g6936 | g6936.t37 | TSS | g6936.t37 | NA | NA |
Sequences
>g6936.t37 Gene=g6936 Length=795
ATTGAAAGGTCAACAGATTTTCGCAAATTTCATCCGCAAAAAAGACAGCAACAAAATGGG
TCGCAAATTTTGTGTTGGTGGAAATTGGAAAATGAATGGATCTAAGGATTCTATCACAGA
ATTGGCCAAAATCCTTTCTGCTGGACCATTAGATCCAAATACTGAAGTCGTTGTTGGATG
CCCAAGCGTTTATATCTCATTCGCTCGAGGACTTCTTCCTTCCTCAATTGGTGTTGCTGG
CCAGGCTATAAAGTCAAATCAGGAGCTTTCACAGGAGAAATCGCACCATCAATGTTAAAA
GATGTTGGTGCTGATTGGGTTATTCTTGGACACTCAGAGAGACGTGCAATTTTCGGCGAA
AGTGATGAATTAATCGCAGATAAAGTTGAATTTGCCCTTTCAGAAGGATTGAAAGTCATT
GCTTGCATTGGTGAAACTCTTCAAGAACGTGAGGCTGGTCAAACTGAAGCAGTATGCTTC
CGTCAAACGAAGGCAATAGCTTCTGTTGTCAAAGACTGGTCAAATGTTGTTATCGCTTAT
GAACCGGTTTGGGCAATTGGAACTGGCAAAACTGCAACTCCAGCTCAAGCCCAAGAGGTT
CATGCTGCTCTCCGTAAATGGTTCGCCGAGAACGTTTCTCAAGCCGTTTCTGATTCAATT
CGTATTCAATATGGTGGCTCAGTTACTGCTGCTAATGCTCGTGAATTAGCTTCACAACCA
GATATCGATGGATTTTTAGTTGGAGGTGCATCATTAAAACCCGAATTCGTACAAATTGTC
AATGCTAGGCAGTAA
>g6936.t37 Gene=g6936 Length=205
MPKRLYLIRSRTSSFLNWCCWPGYKVKSGAFTGEIAPSMLKDVGADWVILGHSERRAIFG
ESDELIADKVEFALSEGLKVIACIGETLQEREAGQTEAVCFRQTKAIASVVKDWSNVVIA
YEPVWAIGTGKTATPAQAQEVHAALRKWFAENVSQAVSDSIRIQYGGSVTAANARELASQ
PDIDGFLVGGASLKPEFVQIVNARQ
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g6936.t37 | CDD | cd00311 | TIM | 24 | 202 | 7.46345E-111 |
| 5 | g6936.t37 | Gene3D | G3DSA:3.20.20.70 | Aldolase class I | 4 | 205 | 1.8E-86 |
| 3 | g6936.t37 | Hamap | MF_00147_B | Triosephosphate isomerase [tpiA]. | 1 | 203 | 47.478188 |
| 2 | g6936.t37 | PANTHER | PTHR21139 | TRIOSEPHOSPHATE ISOMERASE | 21 | 203 | 1.2E-91 |
| 1 | g6936.t37 | Pfam | PF00121 | Triosephosphate isomerase | 24 | 201 | 4.8E-76 |
| 7 | g6936.t37 | ProSitePatterns | PS00171 | Triosephosphate isomerase active site. | 120 | 130 | - |
| 9 | g6936.t37 | ProSiteProfiles | PS51440 | Triosephosphate isomerase (TIM) family profile. | 1 | 203 | 68.905 |
| 4 | g6936.t37 | SUPERFAMILY | SSF51351 | Triosephosphate isomerase (TIM) | 6 | 203 | 1.31E-78 |
| 8 | g6936.t37 | TIGRFAM | TIGR00419 | tim: triose-phosphate isomerase | 26 | 196 | 4.1E-64 |
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:0006096 | glycolytic process | BP |
| GO:0004807 | triose-phosphate isomerase activity | MF |
| 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. There were no conditions that were differentially expressed