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_1 g13134 g13134.t1 TSS g13134.t1 28122256 28122256
chr_1 g13134 g13134.t1 isoform g13134.t1 28122268 28123828
chr_1 g13134 g13134.t1 exon g13134.t1.exon1 28122268 28122343
chr_1 g13134 g13134.t1 cds g13134.t1.CDS1 28122268 28122343
chr_1 g13134 g13134.t1 exon g13134.t1.exon2 28122395 28123276
chr_1 g13134 g13134.t1 cds g13134.t1.CDS2 28122395 28123276
chr_1 g13134 g13134.t1 exon g13134.t1.exon3 28123623 28123828
chr_1 g13134 g13134.t1 cds g13134.t1.CDS3 28123623 28123828
chr_1 g13134 g13134.t1 TTS g13134.t1 NA NA

Sequences

>g13134.t1 Gene=g13134 Length=1164
ATGACGGGAGAATTTGTTTTAGTTACTGGTGCTTCTGGTTATATCGGTTCACATGTTGTT
TTTGCATTGCTTGAAGCTGGCATTAATGTGCTGGCAATGGAAAACTCAACATCAACCGAA
TCTGGAAGTTTAAAAAAGCTTCAAGAAACTTCTGATAAAAAGCTTCAAATTTGTCGCTGT
AATTTATTAAATAATGAAGAAATTTCTTCTATCTTTAAACAATTTCCAATTTCAACTGTG
ATTCATTTAGCAGCATCAAAAGGTGTTAGTCAATCAATGTCATCACCACTCGCTTGCTAT
TCAAATAATCTTCTTAGTACTATCAATTTAATCACTGCCATGAAACAATACAAAGTTTTC
AACATGATTTTTAGTAGTTCTTGTGCTGTTTATGGTGACCAAAGTCAATTACCAGTAAAT
GAAACAGCACAATCACATTCACCCACCAATGTTTATGCGAAATCGAAGAAATTTGTTGAG
GAAATGTTATCTGACATTGCGAAAGCTGATAAGGAGTTTAAATTTATAATTTTTCGTTAT
TTCAATCCAGTTGGCGCGCATGAATCAAATTTGATCGGAGAAGATCCGTCAAAATTGCAA
GTTAGTTTATTGACACTCATGTGTAATGTTGCATTAGGAAGAAAGGAGAAAATTACAATT
TTTGGGAATTGTATTCGAGATTACATTCATGTAATGGATATTGCTGAAGCTCATACAGTA
GCTTTAAAGAAATTTCAAGATAATTTTAATTTCAAAGTGATAAATTTGGGTTCTAGTCGA
GGTACTTCCTTATTGGAATTGATTCAAATTTTTGAGAATGTAAATAATGTAAAAATTCCG
TATGAGATTAAAGAAAAGCGAGAAGGTGAAATTGAAGCAATTGTTGCTGATACGAATTTA
GCTGAAAATGAACTTGGATGGAAGGCAAGAAGAAATATTGAAAGCATGTGCAGAGATTCG
GATTTTGCATCACAAGAAATTCATTATGAAACAAACATCAATGAGAGTGATGAGAATATT
GATTCTAATTTGAATTACAATGACTTTCAAAATCAACAAAATAACATTGGTCCATTGGAT
AATTTTAATAATGGCGAATATGAAATTCCAAAACATTTTAGTTATCATAAAATTATAGAT
CAAAGAATTACTTACAATGATTAA

>g13134.t1 Gene=g13134 Length=387
MTGEFVLVTGASGYIGSHVVFALLEAGINVLAMENSTSTESGSLKKLQETSDKKLQICRC
NLLNNEEISSIFKQFPISTVIHLAASKGVSQSMSSPLACYSNNLLSTINLITAMKQYKVF
NMIFSSSCAVYGDQSQLPVNETAQSHSPTNVYAKSKKFVEEMLSDIAKADKEFKFIIFRY
FNPVGAHESNLIGEDPSKLQVSLLTLMCNVALGRKEKITIFGNCIRDYIHVMDIAEAHTV
ALKKFQDNFNFKVINLGSSRGTSLLELIQIFENVNNVKIPYEIKEKREGEIEAIVADTNL
AENELGWKARRNIESMCRDSDFASQEIHYETNINESDENIDSNLNYNDFQNQQNNIGPLD
NFNNGEYEIPKHFSYHKIIDQRITYND

Protein features from InterProScan

Transcript Database ID Name Start End E.value
5 g13134.t1 Gene3D G3DSA:3.40.50.720 - 6 269 0
6 g13134.t1 Gene3D G3DSA:3.90.25.10 - 197 320 0
2 g13134.t1 PANTHER PTHR43725:SF14 UDP-GLUCOSE 4-EPIMERASE 5 320 0
3 g13134.t1 PANTHER PTHR43725 UDP-GLUCOSE 4-EPIMERASE 5 320 0
1 g13134.t1 Pfam PF16363 GDP-mannose 4,6 dehydratase 7 319 0
4 g13134.t1 SUPERFAMILY SSF51735 NAD(P)-binding Rossmann-fold domains 1 319 0
7 g13134.t1 TIGRFAM TIGR01179 galE: UDP-glucose 4-epimerase GalE 6 320 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