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.t28 isoform g6936.t28 20044082 20045161
chr_2 g6936 g6936.t28 exon g6936.t28.exon1 20044082 20044117
chr_2 g6936 g6936.t28 exon g6936.t28.exon2 20044235 20044376
chr_2 g6936 g6936.t28 cds g6936.t28.CDS1 20044266 20044376
chr_2 g6936 g6936.t28 exon g6936.t28.exon3 20044607 20045161
chr_2 g6936 g6936.t28 cds g6936.t28.CDS2 20044607 20045161
chr_2 g6936 g6936.t28 TTS g6936.t28 20045299 20045299
chr_2 g6936 g6936.t28 TSS g6936.t28 NA NA

Sequences

>g6936.t28 Gene=g6936 Length=733
ATTGAAAGGTCAACAGATTTTCGCAAATTTCATCCGTTGATTAAATAGCAAAAAAGACAG
CAACAAAATGGGTCGCAAATTTTGTGTTGGTGGAAATTGGAAAATGAATGGATCTAAGGA
TTCTATCACAGAATTGGCCAAAATCCTTTCTGCTGGACCATTAGATCCAAATACTGAAAA
TTGCTATAAAGTCAAATCAGGAGCTTTCACAGGAGAAATCGCACCATCAATGTTAAAAGA
TGTTGGTGCTGATTGGGTTATTCTTGGACACTCAGAGAGACGTGCAATTTTCGGCGAAAG
TGATGAATTAATCGCAGATAAAGTTGAATTTGCCCTTTCAGAAGGATTGAAAGTCATTGC
TTGCATTGGTGAAACTCTTCAAGAACGTGAGGCTGGTCAAACTGAAGCAGTATGCTTCCG
TCAAACGAAGGCAATAGCTTCTGTTGTCAAAGACTGGTCAAATGTTGTTATCGCTTATGA
ACCGGTTTGGGCAATTGGAACTGGCAAAACTGCAACTCCAGCTCAAGCCCAAGAGGTTCA
TGCTGCTCTCCGTAAATGGTTCGCCGAGAACGTTTCTCAAGCCGTTTCTGATTCAATTCG
TATTCAATATGGTGGCTCAGTTACTGCTGCTAATGCTCGTGAATTAGCTTCACAACCAGA
TATCGATGGATTTTTAGTTGGAGGTGCATCATTAAAACCCGAATTCGTACAAATTGTCAA
TGCTAGGCAGTAA

>g6936.t28 Gene=g6936 Length=221
MGRKFCVGGNWKMNGSKDSITELAKILSAGPLDPNTENCYKVKSGAFTGEIAPSMLKDVG
ADWVILGHSERRAIFGESDELIADKVEFALSEGLKVIACIGETLQEREAGQTEAVCFRQT
KAIASVVKDWSNVVIAYEPVWAIGTGKTATPAQAQEVHAALRKWFAENVSQAVSDSIRIQ
YGGSVTAANARELASQPDIDGFLVGGASLKPEFVQIVNARQ

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g6936.t28 CDD cd00311 TIM 5 218 8.43247E-121
8 g6936.t28 Gene3D G3DSA:3.20.20.70 Aldolase class I 1 221 3.9E-92
6 g6936.t28 Hamap MF_00147_B Triosephosphate isomerase [tpiA]. 3 219 54.504395
2 g6936.t28 PANTHER PTHR21139:SF17 TRIOSEPHOSPHATE ISOMERASE A 3 37 1.1E-99
4 g6936.t28 PANTHER PTHR21139 TRIOSEPHOSPHATE ISOMERASE 3 37 1.1E-99
3 g6936.t28 PANTHER PTHR21139:SF17 TRIOSEPHOSPHATE ISOMERASE A 36 220 1.1E-99
5 g6936.t28 PANTHER PTHR21139 TRIOSEPHOSPHATE ISOMERASE 36 220 1.1E-99
1 g6936.t28 Pfam PF00121 Triosephosphate isomerase 35 217 7.4E-78
10 g6936.t28 ProSitePatterns PS00171 Triosephosphate isomerase active site. 136 146 -
12 g6936.t28 ProSiteProfiles PS51440 Triosephosphate isomerase (TIM) family profile. 1 219 69.175
7 g6936.t28 SUPERFAMILY SSF51351 Triosephosphate isomerase (TIM) 3 219 3.14E-86
11 g6936.t28 TIGRFAM TIGR00419 tim: triose-phosphate isomerase 37 212 6.8E-65

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