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.t85 TSS g6936.t85 20044234 20044234
chr_2 g6936 g6936.t85 isoform g6936.t85 20044266 20045161
chr_2 g6936 g6936.t85 exon g6936.t85.exon1 20044266 20044376
chr_2 g6936 g6936.t85 cds g6936.t85.CDS1 20044266 20044376
chr_2 g6936 g6936.t85 exon g6936.t85.exon2 20044463 20044540
chr_2 g6936 g6936.t85 cds g6936.t85.CDS2 20044463 20044540
chr_2 g6936 g6936.t85 exon g6936.t85.exon3 20044607 20045039
chr_2 g6936 g6936.t85 cds g6936.t85.CDS3 20044607 20045039
chr_2 g6936 g6936.t85 exon g6936.t85.exon4 20045088 20045161
chr_2 g6936 g6936.t85 cds g6936.t85.CDS4 20045088 20045161
chr_2 g6936 g6936.t85 TTS g6936.t85 20045299 20045299

Sequences

>g6936.t85 Gene=g6936 Length=696
ATGGGTCGCAAATTTTGTGTTGGTGGAAATTGGAAAATGAATGGATCTAAGGATTCTATC
ACAGAATTGGCCAAAATCCTTTCTGCTGGACCATTAGATCCAAATACTGAAGTCGTTGTT
GGATGCCCAAGCGTTTATATCTCATTCGCTCGAGGACTTCTTCCTTCCTCAATTGGTGTT
GCTGGCCAGAATTGCTATAAAGTCAAATCAGGAGCTTTCACAGGAGAAATCGCACCATCA
ATGTTAAAAGATGTTGGTGCTGATTGGGTTATTCTTGGACACTCAGAGAGACGTGCAATT
TTCGGCGAAAGTGATGAATTAATCGCAGATAAAGTTGAATTTGCCCTTTCAGAAGGATTG
AAAGTCATTGCTTGCATTGGTGAAACTCTTCAAGAACGTGAGGCTGGTCAAACTGAAGCA
GTATGCTTCCGTCAAACGAAGGCAATAGCTTCTGTTGTCAAAGACTGGTCAAATGTTGTT
ATCGCTTATGAACCGGTTTGGGCAATTGGAACTGGCAAAACTGCAACTCCAGCTCAAGCC
CAAGAGGTTCATGCTGCTCTCCGTAAATGGTTCGCCGAGAACGTTTCTCAAGCCGTTTCT
GATTCAATTCGTATTCAATATGATATCGATGGATTTTTAGTTGGAGGTGCATCATTAAAA
CCCGAATTCGTACAAATTGTCAATGCTAGGCAGTAA

>g6936.t85 Gene=g6936 Length=231
MGRKFCVGGNWKMNGSKDSITELAKILSAGPLDPNTEVVVGCPSVYISFARGLLPSSIGV
AGQNCYKVKSGAFTGEIAPSMLKDVGADWVILGHSERRAIFGESDELIADKVEFALSEGL
KVIACIGETLQEREAGQTEAVCFRQTKAIASVVKDWSNVVIAYEPVWAIGTGKTATPAQA
QEVHAALRKWFAENVSQAVSDSIRIQYDIDGFLVGGASLKPEFVQIVNARQ

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g6936.t85 CDD cd00311 TIM 5 228 8.96052E-119
6 g6936.t85 Gene3D G3DSA:3.20.20.70 Aldolase class I 1 231 1.0E-90
4 g6936.t85 Hamap MF_00147_B Triosephosphate isomerase [tpiA]. 3 229 53.638039
2 g6936.t85 PANTHER PTHR21139 TRIOSEPHOSPHATE ISOMERASE 2 230 4.4E-101
3 g6936.t85 PANTHER PTHR21139:SF19 TRIOSEPHOSPHATE ISOMERASE B 2 230 4.4E-101
1 g6936.t85 Pfam PF00121 Triosephosphate isomerase 6 227 1.8E-72
8 g6936.t85 ProSitePatterns PS00171 Triosephosphate isomerase active site. 162 172 -
10 g6936.t85 ProSiteProfiles PS51440 Triosephosphate isomerase (TIM) family profile. 4 229 69.758
5 g6936.t85 SUPERFAMILY SSF51351 Triosephosphate isomerase (TIM) 3 229 4.71E-86
9 g6936.t85 TIGRFAM TIGR00419 tim: triose-phosphate isomerase 7 220 2.0E-59

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