Gene loci information

Transcript annotation

  • This transcript has been annotated as UDP-glucose 4-epimerase.

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 g6057 g6057.t4 TSS g6057.t4 13937855 13937855
chr_2 g6057 g6057.t4 isoform g6057.t4 13938723 13939938
chr_2 g6057 g6057.t4 exon g6057.t4.exon1 13938723 13939507
chr_2 g6057 g6057.t4 cds g6057.t4.CDS1 13938856 13939507
chr_2 g6057 g6057.t4 exon g6057.t4.exon2 13939571 13939938
chr_2 g6057 g6057.t4 cds g6057.t4.CDS2 13939571 13939938
chr_2 g6057 g6057.t4 TTS g6057.t4 13940054 13940054

Sequences

>g6057.t4 Gene=g6057 Length=1153
ATGAATGTCAATAACGGTTGTGTTTTGGTAACAGGCGCTTCAGGATATATTGGAAGTCAT
TGCATAGTAACATTGCTAGAAGGTAGGTTTACAATTATTTTTCATTAAATCTCTTCTCTT
TTATTCATTTTCTATGCTTTTTTCTTATATAGCTGGATATGATGTCGTAGCTCTTGATAA
CTTTGCAAATTCAGTAAGAGGAAATAACAATGAATCAATTGCACTTCAACGTGTTGAAGA
AATAACTGGCAAAAAAATCATCTTTTATCCTTGCGATCTACTCGATATTGAATACTTGAG
AAAGATTTTCAGTCAGCATAAAATTGATTCAGTCATTCACTTTGCGGCAATGAAAGCTGT
TGGGGAGTCAATGCAATTTCCATTATTGTATTACAAAAACAATCTCATTGGCATGATAAA
TTTGCTTGAGATGATGAAAGAGCACAATATTTTCAATTTAGTATTCAGCAGCTCATGTAC
TGTCTATGGAGAGCCAGAAAAATTGCCGATAACAGAATCAAATGAAACTGGCAAGAGCGT
AACAAATGTCTATGGTCGTACAAAATACTTTGTAGAAGAAATGTTACGAGATTTATCTCG
TGCAGACGAACGATGGAATATCATAGCATTGAGGTATTTCAATCCTGTTGGTGCACATGC
TTCAGGCAAAATTGGCGAAGATCCAACAAAAGCATTTACAAATTTAATGCCATTTTTAAG
TCAAGTTGCGATTGGAAAGAAAGATGTATTGACAATTTTCGGTGATGATTATGACACACC
TGATGGTACTGGAATTCGTGATTACATTCATGTCATGGATCTTGCAACCGGACACGTGTC
AGCAATGAAAAAGCTTGAGCAAGGCAAATTTGGAATAAAATTTTATAATTTAGGCACAGG
CGTCGGTGTCTCTGTACTGCAATTAATTAAAACATTCGAGAAGGTCAACAATGTGAAAAT
TCCGTATGTCACGCAGCCAAGAAGACAGGGTGACATTTCAACAATGTATGCAGACCCAAA
ATTAGCTGAAGATGAATTACAGTGGAAAGCTAAGTTCACGCTTGAGGAAATGTGTCGAGA
TTTTTGGCTTTGGCAAACAATGAATCCAAATGGTTACAAGAGTGAAACAACAACACATAC
TAATGGACATTGA

>g6057.t4 Gene=g6057 Length=339
MLFSYIAGYDVVALDNFANSVRGNNNESIALQRVEEITGKKIIFYPCDLLDIEYLRKIFS
QHKIDSVIHFAAMKAVGESMQFPLLYYKNNLIGMINLLEMMKEHNIFNLVFSSSCTVYGE
PEKLPITESNETGKSVTNVYGRTKYFVEEMLRDLSRADERWNIIALRYFNPVGAHASGKI
GEDPTKAFTNLMPFLSQVAIGKKDVLTIFGDDYDTPDGTGIRDYIHVMDLATGHVSAMKK
LEQGKFGIKFYNLGTGVGVSVLQLIKTFEKVNNVKIPYVTQPRRQGDISTMYADPKLAED
ELQWKAKFTLEEMCRDFWLWQTMNPNGYKSETTTHTNGH

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g6057.t4 CDD cd05247 UDP_G4E_1_SDR_e 7 322 0
5 g6057.t4 Gene3D G3DSA:3.40.50.720 - 7 266 0
6 g6057.t4 Gene3D G3DSA:3.90.25.10 - 185 321 0
2 g6057.t4 PANTHER PTHR43725:SF14 UDP-GLUCOSE 4-EPIMERASE 7 330 0
3 g6057.t4 PANTHER PTHR43725 UDP-GLUCOSE 4-EPIMERASE 7 330 0
1 g6057.t4 Pfam PF16363 GDP-mannose 4,6 dehydratase 7 316 0
4 g6057.t4 SUPERFAMILY SSF51735 NAD(P)-binding Rossmann-fold domains 8 329 0
7 g6057.t4 TIGRFAM TIGR01179 galE: UDP-glucose 4-epimerase GalE 7 327 0

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:0006012 galactose metabolic process BP
GO:0003978 UDP-glucose 4-epimerase 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