General information for g4935.t5
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Mannosyl-oligosaccharide glucosidase GCS1.
Parent gene
- The parent gene g4935 is located on chr_2: 6090384..6091438 (- 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 | g4935 | g4935.t5 | isoform | g4935.t5 | 6088021 | 6090308 |
| chr_2 | g4935 | g4935.t5 | exon | g4935.t5.exon1 | 6088021 | 6088410 |
| chr_2 | g4935 | g4935.t5 | cds | g4935.t5.CDS1 | 6088370 | 6088410 |
| chr_2 | g4935 | g4935.t5 | exon | g4935.t5.exon2 | 6089798 | 6090308 |
| chr_2 | g4935 | g4935.t5 | cds | g4935.t5.CDS2 | 6089798 | 6090227 |
| chr_2 | g4935 | g4935.t5 | TSS | g4935.t5 | NA | NA |
| chr_2 | g4935 | g4935.t5 | TTS | g4935.t5 | NA | NA |
Sequences
>g4935.t5 Gene=g4935 Length=901
ACTAAACCGAATTTCGTTGCGCTCCAATTAAACGTTGAAATTCCCTTCACTCTAGACATA
ACATTCCAAGATGTATCAAATATGAGTTCATTTTCCGACGACTTTGTGGCATTGCCTGTC
GGCGATGACTATTCAAAATTATTAGCAAAAAAGCGTAAAGAGTTTGAAACAAAATTTTCA
GACATTTTTCAATTACAACAAAAGGGATATTCGAAATTTGAAATTAAAGCAGCAGAGGCA
GCACTTTCAAATATGTTGGGAAGTATAGGATATTTTTATGGTGCATCAAAAGTTCAAAGT
AATTATAATAAGGGACCAGTTCCATATTGGAAAGCACCTCTTTTAACAGCCGTACCATCA
AGGTCATTTTTTCCTCGAGGATTTTTATGGGATGAAGGATTTCATGGTCTACTGATTTCT
ACTTGGGATTTGGATATTGAGTTAGATATTATCAGTCATTGGTTTGATCTCATTAATATC
GAAGGTTGGATTCCTCGTGAACAAATTCTTGAAATAACAAAACAATTTTTTTTATTCCTG
TTGCGAAACTAAATAGCATTTTCTCTTTATTTACAAATTAAGTAAGTAATGTTCTCCATT
TTTTGTTGTTAATTTCTGCCTTTCTCTTTTCTAAAAAAATATAGATAGTTAATTTGAAGA
TAAAAGACTAAAACACTTTTAAATGGATAGAAAAATAATAAACATTTTCAAATTCTTAAA
TGCGAGATTCGAAAAAATATATTATCTCTTGTCTAGACTTTCATTCCGCTTTTCTTACTC
TTTTCATCTATAGATTTAAAAAATTTTGTGTCTTCGAAAACATATCACAATGATTCATAT
TATTTTGCATGATTTTTGTTACATCATAAGATTTTTTTCTCTCTCTCTCTCGTGTCTGTC
T
>g4935.t5 Gene=g4935 Length=156
MSSFSDDFVALPVGDDYSKLLAKKRKEFETKFSDIFQLQQKGYSKFEIKAAEAALSNMLG
SIGYFYGASKVQSNYNKGPVPYWKAPLLTAVPSRSFFPRGFLWDEGFHGLLISTWDLDIE
LDIISHWFDLINIEGWIPREQILEITKQFFLFLLRN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g4935.t5 | Gene3D | G3DSA:1.50.10.10 | - | 40 | 150 | 0 |
| 2 | g4935.t5 | PANTHER | PTHR10412:SF11 | MANNOSYL-OLIGOSACCHARIDE GLUCOSIDASE | 12 | 144 | 0 |
| 3 | g4935.t5 | PANTHER | PTHR10412 | MANNOSYL-OLIGOSACCHARIDE GLUCOSIDASE | 12 | 144 | 0 |
| 1 | g4935.t5 | Pfam | PF03200 | Glycosyl hydrolase family 63 C-terminal domain | 15 | 144 | 0 |
| 4 | g4935.t5 | SUPERFAMILY | SSF48208 | Six-hairpin glycosidases | 14 | 143 | 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:0004573 | mannosyl-oligosaccharide glucosidase activity | MF |
| GO:0009311 | oligosaccharide metabolic process | BP |
| GO:0005975 | carbohydrate metabolic 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.
