Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative 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 g8111 g8111.t5 TTS g8111.t5 28625930 28625930
chr_2 g8111 g8111.t5 isoform g8111.t5 28626116 28628242
chr_2 g8111 g8111.t5 exon g8111.t5.exon1 28626116 28626997
chr_2 g8111 g8111.t5 cds g8111.t5.CDS1 28626116 28626553
chr_2 g8111 g8111.t5 exon g8111.t5.exon2 28627875 28628142
chr_2 g8111 g8111.t5 exon g8111.t5.exon3 28628211 28628242
chr_2 g8111 g8111.t5 TSS g8111.t5 28628234 28628234

Sequences

>g8111.t5 Gene=g8111 Length=1182
GACTCATCAGTCTACTTTGTGTATTCAACCAAATTCTTAAGTTTCAAGCATTTTCTAATT
ATGCTGTCAACAATATTAACAACAGGAGGTGCAGGATTCATTGGAAGCCACACAGTTTTA
GAGCTTCTTAATGCTGGTCATAATGTAATTTGCATTGATAATGAATGCAATGCTTATCAT
GAAAAAAATGAATTGCTGCCAGAATCATTAAAAAGAGTAGAAGAAATAACTGGAAAGAAT
GTCACTTATTATAATGTGGATATACGAGATAAAAACGCTCTAAGTTCGGTTTTTAAAAAG
CACAAAATCGATTGTGTTATTCATTTTGCTGCACTCAAGGCCGTAGGAGAATCATGTCGA
TTACCGCTACAATATTATCAAAATAACATAACTGGCACTTCCGTTTTACTTGAAGTAATG
ACTGAAAATCAAGTTTTTAATTTTGTGTATAGCAGCAGTGCAACAGTTTATGGAGACCCA
ATTTTCTTGCCTATAACAGAAGAACATCCTACCGGTGCATGTACAAATCCTTATGGTAAA
AGTAAATATTTTACCGAAGAAATATTGAAAGATTTATGTGTTTCTGATAATGTAAGAATT
TTTCAAAGTTTTATTTAAATTTATTTTCCGTTAATTTATTTCTTTTAGCGCTGGAATGTT
ATCTCATTGAGATATTTTAATCCTGTTGGAGCTCATAAATCAGGAAAAATCGGAGAAGAT
CCAAATGGAGAACCTAATAACTTAATGCCATATATTTCGCAAGTTGCTGTTGGAAAACGA
ACATTGTTAAGAATTTTTGGTAATGATTATGCTACCGAAGACGGCACAGGAGTAAGGGAT
TACATTCATATTGTTGATCTTGCTCAAGGACATCTATCCGCTCTAAATAAGTTGATTGAA
GGTGGATTGAGAGGATTTGCTGTTTATAATTTGGGAACTGGCAAGGGTTATTCAGTTTTA
GACATGGTAAAAAATTTTTCTACTGCATGCGGAATAGACATTCCATATGAATTCACGTCT
CGTCGAGATGGAGATATTGCCGCATGTTATGCTAGTACTGAAAAAGCTGAAAAAGAACTT
GGTTGGAAGGCAAAATATGGAATCAAAGAAATGTGTGAAGACACATGGAGATGGCAGAAA
AATAATCCTAATGGATTTGCTGCATTAAAATCCGATCTCTAG

>g8111.t5 Gene=g8111 Length=145
MPYISQVAVGKRTLLRIFGNDYATEDGTGVRDYIHIVDLAQGHLSALNKLIEGGLRGFAV
YNLGTGKGYSVLDMVKNFSTACGIDIPYEFTSRRDGDIAACYASTEKAEKELGWKAKYGI
KEMCEDTWRWQKNNPNGFAALKSDL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g8111.t5 Gene3D G3DSA:3.90.25.10 - 1 56 0e+00
8 g8111.t5 Gene3D G3DSA:3.90.25.10 - 57 144 0e+00
2 g8111.t5 PANTHER PTHR43725:SF14 UDP-GLUCOSE 4-EPIMERASE 1 139 0e+00
3 g8111.t5 PANTHER PTHR43725 UDP-GLUCOSE 4-EPIMERASE 1 139 0e+00
5 g8111.t5 PRINTS PR01713 Nucleotide sugar epimerase signature 31 46 1e-07
6 g8111.t5 PRINTS PR01713 Nucleotide sugar epimerase signature 58 73 1e-07
4 g8111.t5 PRINTS PR01713 Nucleotide sugar epimerase signature 97 114 1e-07
1 g8111.t5 Pfam PF16363 GDP-mannose 4,6 dehydratase 2 127 0e+00
7 g8111.t5 SUPERFAMILY SSF51735 NAD(P)-binding Rossmann-fold domains 1 137 0e+00

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

GO terms from InterProScan

There are no GO annotations for this transcript.

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.

Raw TPM values