General information for g6057.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as UDP-glucose 4-epimerase.
Parent gene
- The parent gene g6057 is located on chr_2: 13938723..13939938 (+ strand)
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.t3 | isoform | g6057.t3 | 13937844 | 13939938 |
| chr_2 | g6057 | g6057.t3 | exon | g6057.t3.exon1 | 13937844 | 13937940 |
| chr_2 | g6057 | g6057.t3 | TSS | g6057.t3 | 13937855 | 13937855 |
| chr_2 | g6057 | g6057.t3 | exon | g6057.t3.exon2 | 13938711 | 13938804 |
| chr_2 | g6057 | g6057.t3 | cds | g6057.t3.CDS1 | 13938723 | 13938804 |
| chr_2 | g6057 | g6057.t3 | exon | g6057.t3.exon3 | 13938875 | 13939483 |
| chr_2 | g6057 | g6057.t3 | cds | g6057.t3.CDS2 | 13938875 | 13939483 |
| chr_2 | g6057 | g6057.t3 | exon | g6057.t3.exon4 | 13939649 | 13939938 |
| chr_2 | g6057 | g6057.t3 | cds | g6057.t3.CDS3 | 13939649 | 13939938 |
| chr_2 | g6057 | g6057.t3 | TTS | g6057.t3 | 13940054 | 13940054 |
Sequences
>g6057.t3 Gene=g6057 Length=1090
AGTGTCTACTTCAGTTAAGAACGAGTTTGTCTGCTGTTAGTTTGTTGCTCTGCCACAGCT
TTGATTTTTTTATTGTGCTAAAACTACTGGCAAATAGAATTCATCAGCAATGAATGTCAA
TAACGGTTGTGTTTTGGTAACAGGCGCTTCAGGATATATTGGAAGTCATTGCATAGTAAC
ATTGCTAGAAGCTGGATATGATGTCGTAGCTCTTGATAACTTTGCAAATTCAGTAAGAGG
AAATAACAATGAATCAATTGCACTTCAACGTGTTGAAGAAATAACTGGCAAAAAAATCAT
CTTTTATCCTTGCGATCTACTCGATATTGAATACTTGAGAAAGATTTTCAGTCAGCATAA
AATTGATTCAGTCATTCACTTTGCGGCAATGAAAGCTGTTGGGGAGTCAATGCAATTTCC
ATTATTGTATTACAAAAACAATCTCATTGGCATGATAAATTTGCTTGAGATGATGAAAGA
GCACAATATTTTCAATTTAGTATTCAGCAGCTCATGTACTGTCTATGGAGAGCCAGAAAA
ATTGCCGATAACAGAATCAAATGAAACTGGCAAGAGCGTAACAAATGTCTATGGTCGTAC
AAAATACTTTGTAGAAGAAATGTTACGAGATTTATCTCGTGCAGACGAACGATGGAATAT
CATAGCATTGAGGTATTTCAATCCTGTTGGTGCACATGCTTCAGGCAAAATTGGCGAAGA
TCCAACAAAAGCATTTACAAATTTAATGCCATTTTTAAGTCAAGTTGCGATTGGAAAGAA
AGATGTATTGACAATTTTCGGCAAATTTGGAATAAAATTTTATAATTTAGGCACAGGCGT
CGGTGTCTCTGTACTGCAATTAATTAAAACATTCGAGAAGGTCAACAATGTGAAAATTCC
GTATGTCACGCAGCCAAGAAGACAGGGTGACATTTCAACAATGTATGCAGACCCAAAATT
AGCTGAAGATGAATTACAGTGGAAAGCTAAGTTCACGCTTGAGGAAATGTGTCGAGATTT
TTGGCTTTGGCAAACAATGAATCCAAATGGTTACAAGAGTGAAACAACAACACATACTAA
TGGACATTGA
>g6057.t3 Gene=g6057 Length=326
MNVNNGCVLVTGASGYIGSHCIVTLLEAGYDVVALDNFANSVRGNNNESIALQRVEEITG
KKIIFYPCDLLDIEYLRKIFSQHKIDSVIHFAAMKAVGESMQFPLLYYKNNLIGMINLLE
MMKEHNIFNLVFSSSCTVYGEPEKLPITESNETGKSVTNVYGRTKYFVEEMLRDLSRADE
RWNIIALRYFNPVGAHASGKIGEDPTKAFTNLMPFLSQVAIGKKDVLTIFGKFGIKFYNL
GTGVGVSVLQLIKTFEKVNNVKIPYVTQPRRQGDISTMYADPKLAEDELQWKAKFTLEEM
CRDFWLWQTMNPNGYKSETTTHTNGH
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g6057.t3 | CDD | cd05247 | UDP_G4E_1_SDR_e | 8 | 309 | 0.0e+00 |
| 8 | g6057.t3 | Gene3D | G3DSA:3.40.50.720 | - | 1 | 194 | 0.0e+00 |
| 9 | g6057.t3 | Gene3D | G3DSA:3.90.25.10 | - | 195 | 319 | 0.0e+00 |
| 3 | g6057.t3 | PANTHER | PTHR43725:SF14 | UDP-GLUCOSE 4-EPIMERASE | 4 | 232 | 0.0e+00 |
| 5 | g6057.t3 | PANTHER | PTHR43725 | UDP-GLUCOSE 4-EPIMERASE | 4 | 232 | 0.0e+00 |
| 4 | g6057.t3 | PANTHER | PTHR43725:SF14 | UDP-GLUCOSE 4-EPIMERASE | 234 | 317 | 0.0e+00 |
| 6 | g6057.t3 | PANTHER | PTHR43725 | UDP-GLUCOSE 4-EPIMERASE | 234 | 317 | 0.0e+00 |
| 1 | g6057.t3 | Pfam | PF01370 | NAD dependent epimerase/dehydratase family | 8 | 228 | 0.0e+00 |
| 2 | g6057.t3 | Pfam | PF16363 | GDP-mannose 4,6 dehydratase | 252 | 303 | 2.3e-06 |
| 7 | g6057.t3 | SUPERFAMILY | SSF51735 | NAD(P)-binding Rossmann-fold domains | 5 | 316 | 0.0e+00 |
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:0003824 | catalytic activity | MF |
| 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