Gene loci information

Transcript annotation

  • This transcript has been annotated as Triosephosphate isomerase.

Parent gene

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.t11 isoform g6936.t11 20044082 20045161
chr_2 g6936 g6936.t11 exon g6936.t11.exon1 20044082 20044117
chr_2 g6936 g6936.t11 exon g6936.t11.exon2 20044235 20044376
chr_2 g6936 g6936.t11 cds g6936.t11.CDS1 20044266 20044376
chr_2 g6936 g6936.t11 exon g6936.t11.exon3 20044463 20044540
chr_2 g6936 g6936.t11 cds g6936.t11.CDS2 20044463 20044540
chr_2 g6936 g6936.t11 exon g6936.t11.exon4 20044607 20044727
chr_2 g6936 g6936.t11 cds g6936.t11.CDS3 20044607 20044727
chr_2 g6936 g6936.t11 exon g6936.t11.exon5 20044797 20045161
chr_2 g6936 g6936.t11 cds g6936.t11.CDS4 20044797 20045161
chr_2 g6936 g6936.t11 TTS g6936.t11 20045299 20045299
chr_2 g6936 g6936.t11 TSS g6936.t11 NA NA

Sequences

>g6936.t11 Gene=g6936 Length=742
ATTGAAAGGTCAACAGATTTTCGCAAATTTCATCCGTTGATTAAATAGCAAAAAAGACAG
CAACAAAATGGGTCGCAAATTTTGTGTTGGTGGAAATTGGAAAATGAATGGATCTAAGGA
TTCTATCACAGAATTGGCCAAAATCCTTTCTGCTGGACCATTAGATCCAAATACTGAAGT
CGTTGTTGGATGCCCAAGCGTTTATATCTCATTCGCTCGAGGACTTCTTCCTTCCTCAAT
TGGTGTTGCTGGCCAGAATTGCTATAAAGTCAAATCAGGAGCTTTCACAGGAGAAATCGC
ACCATCAATGTTAAAAGATGTTGGTGCTGATTGGGTTATTCTTGGACACTCAGAGAGACG
TGCAATTTTCGGCGAAAGTGAAACTCTTCAAGAACGTGAGGCTGGTCAAACTGAAGCAGT
ATGCTTCCGTCAAACGAAGGCAATAGCTTCTGTTGTCAAAGACTGGTCAAATGTTGTTAT
CGCTTATGAACCGGTTTGGGCAATTGGAACTGGCAAAACTGCAACTCCAGCTCAAGCCCA
AGAGGTTCATGCTGCTCTCCGTAAATGGTTCGCCGAGAACGTTTCTCAAGCCGTTTCTGA
TTCAATTCGTATTCAATATGGTGGCTCAGTTACTGCTGCTAATGCTCGTGAATTAGCTTC
ACAACCAGATATCGATGGATTTTTAGTTGGAGGTGCATCATTAAAACCCGAATTCGTACA
AATTGTCAATGCTAGGCAGTAA

>g6936.t11 Gene=g6936 Length=224
MGRKFCVGGNWKMNGSKDSITELAKILSAGPLDPNTEVVVGCPSVYISFARGLLPSSIGV
AGQNCYKVKSGAFTGEIAPSMLKDVGADWVILGHSERRAIFGESETLQEREAGQTEAVCF
RQTKAIASVVKDWSNVVIAYEPVWAIGTGKTATPAQAQEVHAALRKWFAENVSQAVSDSI
RIQYGGSVTAANARELASQPDIDGFLVGGASLKPEFVQIVNARQ

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g6936.t11 CDD cd00311 TIM 5 221 5.11728E-115
8 g6936.t11 Gene3D G3DSA:3.20.20.70 Aldolase class I 1 105 1.2E-36
9 g6936.t11 Gene3D G3DSA:3.20.20.70 Aldolase class I 106 224 4.1E-51
6 g6936.t11 Hamap MF_00147_B Triosephosphate isomerase [tpiA]. 3 222 53.177048
3 g6936.t11 PANTHER PTHR21139:SF17 TRIOSEPHOSPHATE ISOMERASE A 3 107 6.2E-100
5 g6936.t11 PANTHER PTHR21139 TRIOSEPHOSPHATE ISOMERASE 3 107 6.2E-100
2 g6936.t11 PANTHER PTHR21139:SF17 TRIOSEPHOSPHATE ISOMERASE A 105 223 6.2E-100
4 g6936.t11 PANTHER PTHR21139 TRIOSEPHOSPHATE ISOMERASE 105 223 6.2E-100
1 g6936.t11 Pfam PF00121 Triosephosphate isomerase 105 220 3.4E-44
11 g6936.t11 ProSitePatterns PS00171 Triosephosphate isomerase active site. 139 149 -
12 g6936.t11 ProSiteProfiles PS51440 Triosephosphate isomerase (TIM) family profile. 4 222 65.613
7 g6936.t11 SUPERFAMILY SSF51351 Triosephosphate isomerase (TIM) 3 222 7.33E-83

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.

Raw TPM values