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.t24 isoform g6936.t24 20044082 20045161
chr_2 g6936 g6936.t24 exon g6936.t24.exon1 20044082 20044117
chr_2 g6936 g6936.t24 exon g6936.t24.exon2 20044235 20044376
chr_2 g6936 g6936.t24 cds g6936.t24.CDS1 20044266 20044376
chr_2 g6936 g6936.t24 exon g6936.t24.exon3 20044463 20044540
chr_2 g6936 g6936.t24 cds g6936.t24.CDS2 20044463 20044540
chr_2 g6936 g6936.t24 exon g6936.t24.exon4 20044607 20044899
chr_2 g6936 g6936.t24 cds g6936.t24.CDS3 20044607 20044899
chr_2 g6936 g6936.t24 exon g6936.t24.exon5 20044985 20045161
chr_2 g6936 g6936.t24 cds g6936.t24.CDS4 20044985 20045075
chr_2 g6936 g6936.t24 TTS g6936.t24 20045299 20045299
chr_2 g6936 g6936.t24 TSS g6936.t24 NA NA

Sequences

>g6936.t24 Gene=g6936 Length=726
ATTGAAAGGTCAACAGATTTTCGCAAATTTCATCCGTTGATTAAATAGCAAAAAAGACAG
CAACAAAATGGGTCGCAAATTTTGTGTTGGTGGAAATTGGAAAATGAATGGATCTAAGGA
TTCTATCACAGAATTGGCCAAAATCCTTTCTGCTGGACCATTAGATCCAAATACTGAAGT
CGTTGTTGGATGCCCAAGCGTTTATATCTCATTCGCTCGAGGACTTCTTCCTTCCTCAAT
TGGTGTTGCTGGCCAGAATTGCTATAAAGTCAAATCAGGAGCTTTCACAGGAGAAATCGC
ACCATCAATGTTAAAAGATGTTGGTGCTGATTGGGTTATTCTTGGACACTCAGAGAGACG
TGCAATTTTCGGCGAAAGTGATGAATTAATCGCAGATAAAGTTGAATTTGCCCTTTCAGA
AGGATTGAAAGTCATTGCTTGCATTGGTGAAACTCTTCAAGAACGTGAGGCTGGTCAAAC
TGAAGCAGTATGCTTCCGTCAAACGAAGGCAATAGCTTCTGTTGTCAAAGACTGGTCAAA
TGTTGTTATTGGTTCGCCGAGAACGTTTCTCAAGCCGTTTCTGATTCAATTCGTATTCAA
TATGGTGGCTCAGTTACTGCTGCTAATGCTCGTGAATTAGCTTCACAACCAGATATCGAT
GGATTTTTAGTTGGAGGTGCATCATTAAAACCCGAATTCGTACAAATTGTCAATGCTAGG
CAGTAA

>g6936.t24 Gene=g6936 Length=190
MGRKFCVGGNWKMNGSKDSITELAKILSAGPLDPNTEVVVGCPSVYISFARGLLPSSIGV
AGQNCYKVKSGAFTGEIAPSMLKDVGADWVILGHSERRAIFGESDELIADKVEFALSEGL
KVIACIGETLQEREAGQTEAVCFRQTKAIASVVKDWSNVVIGSPRTFLKPFLIQFVFNMV
AQLLLLMLVN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g6936.t24 CDD cd00311 TIM 5 161 1.56048E-77
5 g6936.t24 Gene3D G3DSA:3.20.20.70 Aldolase class I 1 162 4.2E-60
2 g6936.t24 PANTHER PTHR21139 TRIOSEPHOSPHATE ISOMERASE 2 161 1.0E-67
3 g6936.t24 PANTHER PTHR21139:SF19 TRIOSEPHOSPHATE ISOMERASE B 2 161 1.0E-67
1 g6936.t24 Pfam PF00121 Triosephosphate isomerase 6 161 3.6E-46
7 g6936.t24 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 170 -
8 g6936.t24 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 171 189 -
6 g6936.t24 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 190 190 -
11 g6936.t24 ProSiteProfiles PS51440 Triosephosphate isomerase (TIM) family profile. 4 161 46.86
4 g6936.t24 SUPERFAMILY SSF51351 Triosephosphate isomerase (TIM) 3 162 1.24E-56
10 g6936.t24 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 170 189 -

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: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