General information for g8255.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as D-glucuronyl C5-epimerase B.
Parent gene
- The parent gene g8255 is located on chr_2: 29360667..29362948 (+ 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 | g8255 | g8255.t3 | TSS | g8255.t3 | 29357318 | 29357318 |
| chr_2 | g8255 | g8255.t3 | isoform | g8255.t3 | 29357453 | 29359697 |
| chr_2 | g8255 | g8255.t3 | exon | g8255.t3.exon1 | 29357453 | 29357482 |
| chr_2 | g8255 | g8255.t3 | cds | g8255.t3.CDS1 | 29357453 | 29357482 |
| chr_2 | g8255 | g8255.t3 | exon | g8255.t3.exon2 | 29358205 | 29358343 |
| chr_2 | g8255 | g8255.t3 | cds | g8255.t3.CDS2 | 29358205 | 29358343 |
| chr_2 | g8255 | g8255.t3 | exon | g8255.t3.exon3 | 29358996 | 29359697 |
| chr_2 | g8255 | g8255.t3 | cds | g8255.t3.CDS3 | 29358996 | 29359696 |
| chr_2 | g8255 | g8255.t3 | TTS | g8255.t3 | NA | NA |
Sequences
>g8255.t3 Gene=g8255 Length=871
ATGTTTAGCTCACAAAAATCGAGCGAAAAACATACAACGCTCTTTTTGATCATGATGAGA
CTTAATTTGAAATATGTTCTTAGCAGTCTTATTTTAATGGTCACTTGCGTAACATTGATG
CTGTGGCATCGTTGTGATTTTGTAAGAACATTTCCAAAAAGATTTTATGCAAATCAATAT
CAAGAAGAATCTGTTGAAATTGATTGTGTAATAAATCAAGAGTACTCAATAGCCTGTAGA
AGAGAGGGAGATGAAGTTTATCTTCCTTTCTCATTCATTAAAAAATATTTTGAAGTTTAT
GGTTCACTCAATACGATAGACGGCACTACGCATTTTGACTGGAGTCATAGTTATGGTAAA
GTAAATCTACCGCGCTCTATCTACGACTCAAAGGGTATCTTTATGTATTTTGAAAATTAC
AATGTTGAAGTAAGAGATAGAGTCAAATGTATAAGTGCGAGTGCTGGAGTGCCAATTTCA
ATTCAATGGGAAAGTCAAGGTTATTTTTATGCTACACAAATTGCCCAATTTGGCCTATCA
CACTATAGTAAAAATTTAACTGAACCGGAACCAACGAGAAAAATTATTGAAGATGCTGAC
CTTAATCAATATGCATGGATTACACCAAGAAATAGTTCAATAAGTCGCAACTATTCTACC
GATATTACAGGAGTCGTCAATTTTGCTACATCCAATCATATTGATAGCGCTATCTACTCT
GAAATGGACCATGTCGTTGACCTCATTATGAGCATCGACCTATACTTTCAACAAAATTCA
AGTATGATGATAACAATGCAAAATCGTGAAAACCAGCAGCTGTATGTTCTACATTACATT
CTTGCTGACCTTTCGATAACTGTGCAAGATG
>g8255.t3 Gene=g8255 Length=290
MFSSQKSSEKHTTLFLIMMRLNLKYVLSSLILMVTCVTLMLWHRCDFVRTFPKRFYANQY
QEESVEIDCVINQEYSIACRREGDEVYLPFSFIKKYFEVYGSLNTIDGTTHFDWSHSYGK
VNLPRSIYDSKGIFMYFENYNVEVRDRVKCISASAGVPISIQWESQGYFYATQIAQFGLS
HYSKNLTEPEPTRKIIEDADLNQYAWITPRNSSISRNYSTDITGVVNFATSNHIDSAIYS
EMDHVVDLIMSIDLYFQQNSSMMITMQNRENQQLYVLHYILADLSITVQD
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 1 | g8255.t3 | PANTHER | PTHR13174 | D-GLUCURONYL C5-EPIMERASE | 19 | 289 | 2.6E-86 |
| 3 | g8255.t3 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 20 | - |
| 5 | g8255.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 21 | 42 | - |
| 4 | g8255.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 43 | 290 | - |
| 2 | g8255.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 21 | 43 | - |
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:0047464 | heparosan-N-sulfate-glucuronate 5-epimerase activity | MF |
| GO:0015012 | heparan sulfate proteoglycan biosynthetic process | BP |
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.
