General information for g1644.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Putative glucosylceramidase 3.
Parent gene
- The parent gene g1644 is located on chr_3: 12275318..12276322 (- 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_3 | g1644 | g1644.t4 | TTS | g1644.t4 | 12274247 | 12274247 |
| chr_3 | g1644 | g1644.t4 | isoform | g1644.t4 | 12274348 | 12274992 |
| chr_3 | g1644 | g1644.t4 | exon | g1644.t4.exon1 | 12274348 | 12274447 |
| chr_3 | g1644 | g1644.t4 | cds | g1644.t4.CDS1 | 12274348 | 12274447 |
| chr_3 | g1644 | g1644.t4 | exon | g1644.t4.exon2 | 12274520 | 12274713 |
| chr_3 | g1644 | g1644.t4 | cds | g1644.t4.CDS2 | 12274520 | 12274713 |
| chr_3 | g1644 | g1644.t4 | exon | g1644.t4.exon3 | 12274768 | 12274895 |
| chr_3 | g1644 | g1644.t4 | cds | g1644.t4.CDS3 | 12274768 | 12274851 |
| chr_3 | g1644 | g1644.t4 | exon | g1644.t4.exon4 | 12274980 | 12274992 |
| chr_3 | g1644 | g1644.t4 | TSS | g1644.t4 | NA | NA |
Sequences
>g1644.t4 Gene=g1644 Length=435
GCATCATCGGGAGTCTTAGGATCATGGAGTAGATTTGAAGATTATACAATCGACATAATG
GAAGATTTCAATCATTTCGTGAGTGCTTGGGTCGATTGGAATTTAATTTTGGATGAAGAA
GGTGGACCAAATTATGCTAAAAACACAGTTGATGCTGCTATGATTGCTACTGAAAATCAA
ATTTACAAACAGCCGATTTTTTATGCAATTGGACATTTCTCAAAGTTTGTATTGCCAGGT
TCAGTAAGAATCAAATCAAAACCGTCAAATCGCTTTATAAAAAGCGTGTCATTTTTACGG
CCCGATGGATATATTGTGGTAATTTTGTATAATATAGCTGAACATAGCATGGATGTAAAC
GTTTTTGATAAAGAGCATGGTGTTTTGCGATTGGAACTTCCAGCAAAATCACTACACACA
TTGATTTATAAATAG
>g1644.t4 Gene=g1644 Length=125
MEDFNHFVSAWVDWNLILDEEGGPNYAKNTVDAAMIATENQIYKQPIFYAIGHFSKFVLP
GSVRIKSKPSNRFIKSVSFLRPDGYIVVILYNIAEHSMDVNVFDKEHGVLRLELPAKSLH
TLIYK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g1644.t4 | Gene3D | G3DSA:3.20.20.80 | Glycosidases | 1 | 59 | 0 |
| 5 | g1644.t4 | Gene3D | G3DSA:2.60.40.1180 | - | 60 | 125 | 0 |
| 3 | g1644.t4 | PANTHER | PTHR11069 | GLUCOSYLCERAMIDASE | 1 | 125 | 0 |
| 2 | g1644.t4 | Pfam | PF02055 | Glycosyl hydrolase family 30 TIM-barrel domain | 2 | 58 | 0 |
| 1 | g1644.t4 | Pfam | PF17189 | Glycosyl hydrolase family 30 beta sandwich domain | 61 | 122 | 0 |
| 4 | g1644.t4 | SUPERFAMILY | SSF51445 | (Trans)glycosidases | 5 | 62 | 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:0006665 | sphingolipid metabolic process | BP |
| GO:0004348 | glucosylceramidase 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.
