Gene loci information

Transcript annotation

  • This transcript has been annotated as Probable transaldolase.

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_4 g15934 g15934.t24 TSS g15934.t24 7470532 7470532
chr_4 g15934 g15934.t24 isoform g15934.t24 7470541 7473302
chr_4 g15934 g15934.t24 exon g15934.t24.exon1 7470541 7470643
chr_4 g15934 g15934.t24 cds g15934.t24.CDS1 7470541 7470643
chr_4 g15934 g15934.t24 exon g15934.t24.exon2 7471524 7471638
chr_4 g15934 g15934.t24 cds g15934.t24.CDS2 7471524 7471638
chr_4 g15934 g15934.t24 exon g15934.t24.exon3 7472365 7472743
chr_4 g15934 g15934.t24 cds g15934.t24.CDS3 7472365 7472743
chr_4 g15934 g15934.t24 exon g15934.t24.exon4 7472898 7473302
chr_4 g15934 g15934.t24 cds g15934.t24.CDS4 7472898 7473302
chr_4 g15934 g15934.t24 TTS g15934.t24 7473418 7473418

Sequences

>g15934.t24 Gene=g15934 Length=1002
ATGAGCATTGAAGCGAATCAGCCAAATAAAAAAGTAACAATGTCAGTTTTGGATCAATTG
AAAGAAGTCACAACAATTGTTGCTGATACTGGTGATTTTGAAGAGTTTAAACCAACAGAC
GCAACAACCAACCCTTCGCTTATATTATCTGCAGCAAAAATTGAAAAATACTCAAAAGTC
ATCGATCAAGCTGTTGACTATGCTCTTGAAAATGCAAGCACAATTGAAGAACAAGTAGCA
GAAGCAGCTGATCAACTCTTTGTTCTCTTTGGTCATGAAATTCTCAAGGTGATTCCCGGT
CGCGTTTCAACTGAAGTTGATGCACGTCTCTCATTTGATCGCGATGCAAGCATTAAAAAG
GCAATAAAATTTATTGAAGCTTATGAAGCACTTGGAATTAAAAAAGATCGAATTTTGATC
AAACTTGCATCAACATGGGAAGGAATTGAAGCTGCAAGAATTCTTGAAAGTGAACATGGA
ATTCACTGTAATCTCACATTGTTGTTTAGTTTTGCACAAGCTGTTGCATGTGCTGAGGCC
AAAGTTACATTGATCTCACCATTTGTTGGAAGAATTTTGGATTGGTATAAGAAAAATAAC
CCTTCAGTAACTTATGCTGGACCAACTGACCCAGGTGTCATTTCAGTCACAAACATTTAC
AATTACTACAAGAAATTCGATTACAAAACTACCGTCATGGGTGCTTCATTCCGCAATGTT
GGTGAAATCAGAGAACTTGCTGGTTGTGATTTGCTCACAATTAGTCCAGCATTGTTAAAA
GAACTTGATTCTTCCAATGAGAAAATATCCATCAAACTTACACCAGAAAGTGCAAAAGAT
TCAAAACTTGCTCGTATTTCAATGAATGAACAAGTTTTCCGTTGGATGTTAAATGAAGAT
CAAATGGCAACAGAGAAATTGAGTGAAGGAATCAGAAATTTTGCTGCTGATTCAGTCAAA
TTGGAAAATTTGTTGAGAGAAAAAATTGAAGCAAGAAAGTAA

>g15934.t24 Gene=g15934 Length=333
MSIEANQPNKKVTMSVLDQLKEVTTIVADTGDFEEFKPTDATTNPSLILSAAKIEKYSKV
IDQAVDYALENASTIEEQVAEAADQLFVLFGHEILKVIPGRVSTEVDARLSFDRDASIKK
AIKFIEAYEALGIKKDRILIKLASTWEGIEAARILESEHGIHCNLTLLFSFAQAVACAEA
KVTLISPFVGRILDWYKKNNPSVTYAGPTDPGVISVTNIYNYYKKFDYKTTVMGASFRNV
GEIRELAGCDLLTISPALLKELDSSNEKISIKLTPESAKDSKLARISMNEQVFRWMLNED
QMATEKLSEGIRNFAADSVKLENLLREKIEARK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g15934.t24 CDD cd00957 Transaldolase_TalAB 15 325 0.0
6 g15934.t24 Gene3D G3DSA:3.20.20.70 Aldolase class I 9 333 1.1E-138
4 g15934.t24 Hamap MF_00492 Transaldolase [tal]. 14 329 47.210407
2 g15934.t24 PANTHER PTHR10683:SF18 TRANSALDOLASE 15 329 7.1E-150
3 g15934.t24 PANTHER PTHR10683 TRANSALDOLASE 15 329 7.1E-150
1 g15934.t24 Pfam PF00923 Transaldolase/Fructose-6-phosphate aldolase 26 324 1.3E-94
8 g15934.t24 ProSitePatterns PS01054 Transaldolase signature 1. 40 48 -
9 g15934.t24 ProSitePatterns PS00958 Transaldolase active site. 138 155 -
5 g15934.t24 SUPERFAMILY SSF51569 Aldolase 14 329 2.2E-111
10 g15934.t24 TIGRFAM TIGR00874 talAB: transaldolase 16 329 1.1E-146

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:0006098 pentose-phosphate shunt BP
GO:0004801 transaldolase activity MF
GO:0005975 carbohydrate metabolic process BP
GO:0003824 catalytic activity MF
GO:0005737 cytoplasm CC

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.

Raw TPM values