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.t15 isoform g6936.t15 20044082 20045161
chr_2 g6936 g6936.t15 exon g6936.t15.exon1 20044082 20044092
chr_2 g6936 g6936.t15 exon g6936.t15.exon2 20044213 20044376
chr_2 g6936 g6936.t15 cds g6936.t15.CDS1 20044266 20044376
chr_2 g6936 g6936.t15 exon g6936.t15.exon3 20044463 20044540
chr_2 g6936 g6936.t15 cds g6936.t15.CDS2 20044463 20044540
chr_2 g6936 g6936.t15 exon g6936.t15.exon4 20044607 20045161
chr_2 g6936 g6936.t15 cds g6936.t15.CDS3 20044607 20045161
chr_2 g6936 g6936.t15 TTS g6936.t15 20045299 20045299
chr_2 g6936 g6936.t15 TSS g6936.t15 NA NA

Sequences

>g6936.t15 Gene=g6936 Length=808
ATTGAAAGGTCAACCAATTTTATTTCAAAATAGTTGATTAAATAGCAAAAAAGACAGCAA
CAAAATGGGTCGCAAATTTTGTGTTGGTGGAAATTGGAAAATGAATGGATCTAAGGATTC
TATCACAGAATTGGCCAAAATCCTTTCTGCTGGACCATTAGATCCAAATACTGAAGTCGT
TGTTGGATGCCCAAGCGTTTATATCTCATTCGCTCGAGGACTTCTTCCTTCCTCAATTGG
TGTTGCTGGCCAGAATTGCTATAAAGTCAAATCAGGAGCTTTCACAGGAGAAATCGCACC
ATCAATGTTAAAAGATGTTGGTGCTGATTGGGTTATTCTTGGACACTCAGAGAGACGTGC
AATTTTCGGCGAAAGTGATGAATTAATCGCAGATAAAGTTGAATTTGCCCTTTCAGAAGG
ATTGAAAGTCATTGCTTGCATTGGTGAAACTCTTCAAGAACGTGAGGCTGGTCAAACTGA
AGCAGTATGCTTCCGTCAAACGAAGGCAATAGCTTCTGTTGTCAAAGACTGGTCAAATGT
TGTTATCGCTTATGAACCGGTTTGGGCAATTGGAACTGGCAAAACTGCAACTCCAGCTCA
AGCCCAAGAGGTTCATGCTGCTCTCCGTAAATGGTTCGCCGAGAACGTTTCTCAAGCCGT
TTCTGATTCAATTCGTATTCAATATGGTGGCTCAGTTACTGCTGCTAATGCTCGTGAATT
AGCTTCACAACCAGATATCGATGGATTTTTAGTTGGAGGTGCATCATTAAAACCCGAATT
CGTACAAATTGTCAATGCTAGGCAGTAA

>g6936.t15 Gene=g6936 Length=247
MGRKFCVGGNWKMNGSKDSITELAKILSAGPLDPNTEVVVGCPSVYISFARGLLPSSIGV
AGQNCYKVKSGAFTGEIAPSMLKDVGADWVILGHSERRAIFGESDELIADKVEFALSEGL
KVIACIGETLQEREAGQTEAVCFRQTKAIASVVKDWSNVVIAYEPVWAIGTGKTATPAQA
QEVHAALRKWFAENVSQAVSDSIRIQYGGSVTAANARELASQPDIDGFLVGGASLKPEFV
QIVNARQ

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g6936.t15 CDD cd00311 TIM 5 244 2.16332E-133
6 g6936.t15 Gene3D G3DSA:3.20.20.70 Aldolase class I 1 247 2.8E-106
4 g6936.t15 Hamap MF_00147_B Triosephosphate isomerase [tpiA]. 3 245 59.511757
2 g6936.t15 PANTHER PTHR21139:SF17 TRIOSEPHOSPHATE ISOMERASE A 3 246 5.6E-116
3 g6936.t15 PANTHER PTHR21139 TRIOSEPHOSPHATE ISOMERASE 3 246 5.6E-116
1 g6936.t15 Pfam PF00121 Triosephosphate isomerase 6 243 3.3E-89
8 g6936.t15 ProSitePatterns PS00171 Triosephosphate isomerase active site. 162 172 -
10 g6936.t15 ProSiteProfiles PS51440 Triosephosphate isomerase (TIM) family profile. 4 245 83.436
5 g6936.t15 SUPERFAMILY SSF51351 Triosephosphate isomerase (TIM) 3 245 1.31E-96
9 g6936.t15 TIGRFAM TIGR00419 tim: triose-phosphate isomerase 7 238 3.4E-74

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

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. There were no conditions that were differentially expressed