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.t70 isoform g6936.t70 20044234 20045161
chr_2 g6936 g6936.t70 TSS g6936.t70 20044234 20044234
chr_2 g6936 g6936.t70 exon g6936.t70.exon1 20044234 20044376
chr_2 g6936 g6936.t70 cds g6936.t70.CDS1 20044266 20044376
chr_2 g6936 g6936.t70 exon g6936.t70.exon2 20044463 20044540
chr_2 g6936 g6936.t70 cds g6936.t70.CDS2 20044463 20044540
chr_2 g6936 g6936.t70 exon g6936.t70.exon3 20044607 20044942
chr_2 g6936 g6936.t70 cds g6936.t70.CDS3 20044607 20044942
chr_2 g6936 g6936.t70 exon g6936.t70.exon4 20045028 20045161
chr_2 g6936 g6936.t70 cds g6936.t70.CDS4 20045028 20045075
chr_2 g6936 g6936.t70 TTS g6936.t70 20045299 20045299

Sequences

>g6936.t70 Gene=g6936 Length=691
GTTGATTAAATAGCAAAAAAGACAGCAACAAAATGGGTCGCAAATTTTGTGTTGGTGGAA
ATTGGAAAATGAATGGATCTAAGGATTCTATCACAGAATTGGCCAAAATCCTTTCTGCTG
GACCATTAGATCCAAATACTGAAGTCGTTGTTGGATGCCCAAGCGTTTATATCTCATTCG
CTCGAGGACTTCTTCCTTCCTCAATTGGTGTTGCTGGCCAGAATTGCTATAAAGTCAAAT
CAGGAGCTTTCACAGGAGAAATCGCACCATCAATGTTAAAAGATGTTGGTGCTGATTGGG
TTATTCTTGGACACTCAGAGAGACGTGCAATTTTCGGCGAAAGTGATGAATTAATCGCAG
ATAAAGTTGAATTTGCCCTTTCAGAAGGATTGAAAGTCATTGCTTGCATTGGTGAAACTC
TTCAAGAACGTGAGGCTGGTCAAACTGAAGCAGTATGCTTCCGTCAAACGAAGGCAATAG
CTTCTGTTGTCAAAGACTGGTCAAATGTTGTTATCGCTTATGAACCGGTTTGGGCAATTG
GAACTGGCAAAACTGCAGTATTCAATATGGTGGCTCAGTTACTGCTGCTAATGCTCGTGA
ATTAGCTTCACAACCAGATATCGATGGATTTTTAGTTGGAGGTGCATCATTAAAACCCGA
ATTCGTACAAATTGTCAATGCTAGGCAGTAA

>g6936.t70 Gene=g6936 Length=190
MGRKFCVGGNWKMNGSKDSITELAKILSAGPLDPNTEVVVGCPSVYISFARGLLPSSIGV
AGQNCYKVKSGAFTGEIAPSMLKDVGADWVILGHSERRAIFGESDELIADKVEFALSEGL
KVIACIGETLQEREAGQTEAVCFRQTKAIASVVKDWSNVVIAYEPVWAIGTGKTAVFNMV
AQLLLLMLVN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g6936.t70 CDD cd00311 TIM 5 175 8.13416E-92
5 g6936.t70 Gene3D G3DSA:3.20.20.70 Aldolase class I 1 187 1.3E-72
2 g6936.t70 PANTHER PTHR21139 TRIOSEPHOSPHATE ISOMERASE 2 176 1.1E-78
3 g6936.t70 PANTHER PTHR21139:SF19 TRIOSEPHOSPHATE ISOMERASE B 2 176 1.1E-78
1 g6936.t70 Pfam PF00121 Triosephosphate isomerase 6 182 4.2E-59
7 g6936.t70 ProSitePatterns PS00171 Triosephosphate isomerase active site. 162 172 -
8 g6936.t70 ProSiteProfiles PS51440 Triosephosphate isomerase (TIM) family profile. 4 190 56.663
4 g6936.t70 SUPERFAMILY SSF51351 Triosephosphate isomerase (TIM) 3 182 9.69E-69
9 g6936.t70 TIGRFAM TIGR00419 tim: triose-phosphate isomerase 7 175 1.8E-48

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. There were no conditions that were differentially expressed