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.t27 TSS g15934.t27 7470532 7470532
chr_4 g15934 g15934.t27 isoform g15934.t27 7470541 7473302
chr_4 g15934 g15934.t27 exon g15934.t27.exon1 7470541 7470643
chr_4 g15934 g15934.t27 exon g15934.t27.exon2 7471515 7471623
chr_4 g15934 g15934.t27 cds g15934.t27.CDS1 7471620 7471623
chr_4 g15934 g15934.t27 exon g15934.t27.exon3 7472361 7472743
chr_4 g15934 g15934.t27 cds g15934.t27.CDS2 7472361 7472743
chr_4 g15934 g15934.t27 exon g15934.t27.exon4 7472898 7473302
chr_4 g15934 g15934.t27 cds g15934.t27.CDS3 7472898 7473302
chr_4 g15934 g15934.t27 TTS g15934.t27 7473418 7473418

Sequences

>g15934.t27 Gene=g15934 Length=1000
ATGAGCATTGAAGCGAATCAGCCAAATAAAAAAGTAACAATGTCAGTTTTGGATCAATTG
AAAGAAGTCACAACAATTGTTGCTGATACTGGTGATTTTGAAGCAATCAAAGAGTTTAAA
CCAACAGACGCAACAACCAACCCTTCGCTTATATTATCTGCAGCAAAAATTGAAAAATAC
TCAAAAGTCATCGATCAAGCTGTTGACTATGCTAAGCACAATTGAAGAACAAGTAGCAGA
AGCAGCTGATCAACTCTTTGTTCTCTTTGGTCATGAAATTCTCAAGGTGATTCCCGGTCG
CGTTTCAACTGAAGTTGATGCACGTCTCTCATTTGATCGCGATGCAAGCATTAAAAAGGC
AATAAAATTTATTGAAGCTTATGAAGCACTTGGAATTAAAAAAGATCGAATTTTGATCAA
ACTTGCATCAACATGGGAAGGAATTGAAGCTGCAAGAATTCTTGAAAGTGAACATGGAAT
TCACTGTAATCTCACATTGTTGTTTAGTTTTGCACAAGCTGTTGCATGTGCTGAGGCCAA
AGTTACATTGATCTCACCATTTGTTGGAAGAATTTTGGATTGGTATAAGAAAAATAACCC
TTCAGTAACTTATGCTGGACCAACTGACCCAGGTGTCATTTCAGTCACAAACATTTACAA
TTACTACAAGAAATTCGATTACAAAACTACCGTCATGGGTGCTTCATTCCGCAATGTTGG
TGAAATCAGAGAACTTGCTGGTTGTGATTTGCTCACAATTAGTCCAGCATTGTTAAAAGA
ACTTGATTCTTCCAATGAGAAAATATCCATCAAACTTACACCAGAAAGTGCAAAAGATTC
AAAACTTGCTCGTATTTCAATGAATGAACAAGTTTTCCGTTGGATGTTAAATGAAGATCA
AATGGCAACAGAGAAATTGAGTGAAGGAATCAGAAATTTTGCTGCTGATTCAGTCAAATT
GGAAAATTTGTTGAGAGAAAAAATTGAAGCAAGAAAGTAA

>g15934.t27 Gene=g15934 Length=263
MLSTIEEQVAEAADQLFVLFGHEILKVIPGRVSTEVDARLSFDRDASIKKAIKFIEAYEA
LGIKKDRILIKLASTWEGIEAARILESEHGIHCNLTLLFSFAQAVACAEAKVTLISPFVG
RILDWYKKNNPSVTYAGPTDPGVISVTNIYNYYKKFDYKTTVMGASFRNVGEIRELAGCD
LLTISPALLKELDSSNEKISIKLTPESAKDSKLARISMNEQVFRWMLNEDQMATEKLSEG
IRNFAADSVKLENLLREKIEARK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g15934.t27 CDD cd00957 Transaldolase_TalAB 4 255 5.6394E-150
6 g15934.t27 Gene3D G3DSA:3.20.20.70 Aldolase class I 2 263 1.7E-113
2 g15934.t27 PANTHER PTHR10683:SF18 TRANSALDOLASE 4 259 4.8E-126
3 g15934.t27 PANTHER PTHR10683 TRANSALDOLASE 4 259 4.8E-126
1 g15934.t27 Pfam PF00923 Transaldolase/Fructose-6-phosphate aldolase 5 254 1.7E-84
5 g15934.t27 ProSitePatterns PS00958 Transaldolase active site. 68 85 -
4 g15934.t27 SUPERFAMILY SSF51569 Aldolase 4 259 8.69E-95
7 g15934.t27 TIGRFAM TIGR00874 talAB: transaldolase 6 259 1.2E-122

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. There were no conditions that were differentially expressed