General information for g15932.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Probable GDP-L-fucose synthase.
Parent gene
- The parent gene g15932 is located on chr_4: 7466847..7468585 (- 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_4 | g15932 | g15932.t3 | TTS | g15932.t3 | 7466780 | 7466780 |
| chr_4 | g15932 | g15932.t3 | isoform | g15932.t3 | 7466847 | 7467886 |
| chr_4 | g15932 | g15932.t3 | exon | g15932.t3.exon1 | 7466847 | 7467372 |
| chr_4 | g15932 | g15932.t3 | cds | g15932.t3.CDS1 | 7466847 | 7467372 |
| chr_4 | g15932 | g15932.t3 | exon | g15932.t3.exon2 | 7467575 | 7467648 |
| chr_4 | g15932 | g15932.t3 | cds | g15932.t3.CDS2 | 7467575 | 7467648 |
| chr_4 | g15932 | g15932.t3 | exon | g15932.t3.exon3 | 7467869 | 7467886 |
| chr_4 | g15932 | g15932.t3 | cds | g15932.t3.CDS3 | 7467869 | 7467871 |
| chr_4 | g15932 | g15932.t3 | TSS | g15932.t3 | 7468630 | 7468630 |
Sequences
>g15932.t3 Gene=g15932 Length=618
CCTATTGATGAGACTATGGTTCATAATGGTCCACCACATGATTCAAATTTCGGCTACAGC
TATGCTAAAAGAATGATTGATGTTTTAAATAAGGCATATAACCAAAAACACAACTGCAAC
TTTACTTCAGTGATTCCATGCAATGTTTTCGGTCCACATGATAATTATAAAGAAGGAGTT
TCTCATGTAATTCCAGGCATGATTCATCGTCTTCACAAACTTATCAATATTGATAATCCA
GAAATACCTCAAGAAGAAAAAGAATTTATTGTTTATGGAAGTGGAAAACCTTTGAGACAA
TTTATTTATTCACTTGATCTTGCAAAGTTGTTCATTTGGGTGCTAAGAAATTATGACTCA
GTTGAGCCGATAATTTTATCAGTTGATGAAAGTGCTGAAGTGTCAATTGCAAAATTAGCT
GAATCAATTGCAAAAGCTTTTAATTTTAAAGGAAAAATTGTTTTTGACACAACAAAAGCT
GATGGGCAGTACAAAAAAACTGCATCAAATAAGAAATTGAGAGGACTTTTGCCTGATTTC
AAATTTACTGATTTTGATGTTGCTATGAAAACTTCTGTTGATTGGTTTATTGAGCATTAT
GATGAAGCAAGAAAATAA
>g15932.t3 Gene=g15932 Length=200
MVHNGPPHDSNFGYSYAKRMIDVLNKAYNQKHNCNFTSVIPCNVFGPHDNYKEGVSHVIP
GMIHRLHKLINIDNPEIPQEEKEFIVYGSGKPLRQFIYSLDLAKLFIWVLRNYDSVEPII
LSVDESAEVSIAKLAESIAKAFNFKGKIVFDTTKADGQYKKTASNKKLRGLLPDFKFTDF
DVAMKTSVDWFIEHYDEARK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g15932.t3 | Gene3D | G3DSA:3.90.25.10 | - | 46 | 121 | 0 |
| 6 | g15932.t3 | Gene3D | G3DSA:3.90.25.10 | - | 123 | 200 | 0 |
| 2 | g15932.t3 | PANTHER | PTHR43238:SF1 | GDP-L-FUCOSE SYNTHASE | 1 | 200 | 0 |
| 3 | g15932.t3 | PANTHER | PTHR43238 | GDP-L-FUCOSE SYNTHASE | 1 | 200 | 0 |
| 1 | g15932.t3 | Pfam | PF01370 | NAD dependent epimerase/dehydratase family | 4 | 117 | 0 |
| 4 | g15932.t3 | SUPERFAMILY | SSF51735 | NAD(P)-binding Rossmann-fold domains | 7 | 196 | 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:0003824 | catalytic 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.
