General information for g1644.t7
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Lysosomal acid glucosylceramidase.
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.t7 | TTS | g1644.t7 | 12274247 | 12274247 |
| chr_3 | g1644 | g1644.t7 | isoform | g1644.t7 | 12274348 | 12276322 |
| chr_3 | g1644 | g1644.t7 | exon | g1644.t7.exon1 | 12274348 | 12274447 |
| chr_3 | g1644 | g1644.t7 | cds | g1644.t7.CDS1 | 12274348 | 12274447 |
| chr_3 | g1644 | g1644.t7 | exon | g1644.t7.exon2 | 12274520 | 12274713 |
| chr_3 | g1644 | g1644.t7 | cds | g1644.t7.CDS2 | 12274520 | 12274713 |
| chr_3 | g1644 | g1644.t7 | exon | g1644.t7.exon3 | 12274768 | 12274922 |
| chr_3 | g1644 | g1644.t7 | cds | g1644.t7.CDS3 | 12274768 | 12274922 |
| chr_3 | g1644 | g1644.t7 | exon | g1644.t7.exon4 | 12274980 | 12275771 |
| chr_3 | g1644 | g1644.t7 | cds | g1644.t7.CDS4 | 12274980 | 12275771 |
| chr_3 | g1644 | g1644.t7 | exon | g1644.t7.exon5 | 12276271 | 12276322 |
| chr_3 | g1644 | g1644.t7 | cds | g1644.t7.CDS5 | 12276271 | 12276322 |
| chr_3 | g1644 | g1644.t7 | TSS | g1644.t7 | 12276371 | 12276371 |
Sequences
>g1644.t7 Gene=g1644 Length=1293
ATGCATAATATGATACTAAAATTTTTGTCGATTTTTGCAACTTTATCATTAAGCGCATTT
ACTGGAGCAGTGTCATACAATTTGAAGTTATTAAGTAAAGAATTGCAGGAACATGTCTAT
AAAGCTTATTATTCAAAAGACATTGGCATTGGCTATAATTTAATGAGAATTCCCATTGGT
GGTTGTGATTTTGACCTCGCATCATGGACATATAATGAGAAACCCGAGCATGATCCTTAT
TTAAGTAATTTTACACATCTTGATGAACGTGATTTGGATAAAATCAAACAAATTAATGAG
TTAAAAAAAATCACAAAAAATAATGATATAAAAATTTTTGGAGCTGCTTGGAGTCCACCT
ATTTGGATGAAAACAAACAACGAATATACAGGTTTAAGTGCATTGAGAGAAGAATATTAT
CAAACTTGGGCAGACTATCATGTCAAATATCTTGAACTGATGGCCAAAAATAATCTACCG
TTTTGGGCAATTTCAACAGGCAATGAACCGCTGAATGGGATTCTTTTTCCTTACTTTGTT
CATTTTATGTCACTCGGATGGGATCCTGCTATGCAGGGAAAATGGTTAGGGGAGAATTTA
GGTCCAGCAATGAAAAATTCTACATTCACAAAAAACATTTTAATCCTCGGTGGAGATGAT
CAACGTTATACATTACCTATATGGTTTCAACAAATGTTTAAAAGCAATGGTGATTCATGT
GACTATCTTGATGGATTTGCAGTTCATTGGTATGCTGATAAATTTGTTCCTGCTAAAATG
CTTGATGACACAGCTACATTGTTCCCTGATAAATTTATAATTGCAACAGAAGCATCATCG
GGAGATCGTCCATGGGATATGCATAAGCCAGTCTTAGGATCATGGAGTAGATTTGAAGAT
TATACAATCGACATAATGGAAGATTTCAATCATTTCGTGAGTGCTTGGGTCGATTGGAAT
TTAATTTTGGATGAAGAAGGTGGACCAAATTATGCTAAAAACACAGTTGATGCTGCTATG
ATTGCTACTGAAAATCAAATTTACAAACAGCCGATTTTTTATGCAATTGGACATTTCTCA
AAGTTTGTATTGCCAGGTTCAGTAAGAATCAAATCAAAACCGTCAAATCGCTTTATAAAA
AGCGTGTCATTTTTACGGCCCGATGGATATATTGTGGTAATTTTGTATAATATAGCTGAA
CATAGCATGGATGTAAACGTTTTTGATAAAGAGCATGGTGTTTTGCGATTGGAACTTCCA
GCAAAATCACTACACACATTGATTTATAAATAG
>g1644.t7 Gene=g1644 Length=430
MHNMILKFLSIFATLSLSAFTGAVSYNLKLLSKELQEHVYKAYYSKDIGIGYNLMRIPIG
GCDFDLASWTYNEKPEHDPYLSNFTHLDERDLDKIKQINELKKITKNNDIKIFGAAWSPP
IWMKTNNEYTGLSALREEYYQTWADYHVKYLELMAKNNLPFWAISTGNEPLNGILFPYFV
HFMSLGWDPAMQGKWLGENLGPAMKNSTFTKNILILGGDDQRYTLPIWFQQMFKSNGDSC
DYLDGFAVHWYADKFVPAKMLDDTATLFPDKFIIATEASSGDRPWDMHKPVLGSWSRFED
YTIDIMEDFNHFVSAWVDWNLILDEEGGPNYAKNTVDAAMIATENQIYKQPIFYAIGHFS
KFVLPGSVRIKSKPSNRFIKSVSFLRPDGYIVVILYNIAEHSMDVNVFDKEHGVLRLELP
AKSLHTLIYK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g1644.t7 | Gene3D | G3DSA:3.20.20.80 | Glycosidases | 18 | 367 | 1.7E-136 |
| 11 | g1644.t7 | Gene3D | G3DSA:2.60.40.1180 | - | 368 | 427 | 1.7E-136 |
| 3 | g1644.t7 | PANTHER | PTHR11069 | GLUCOSYLCERAMIDASE | 18 | 430 | 7.4E-134 |
| 4 | g1644.t7 | PANTHER | PTHR11069:SF23 | LYSOSOMAL ACID GLUCOSYLCERAMIDASE | 18 | 430 | 7.4E-134 |
| 5 | g1644.t7 | PRINTS | PR00843 | Glycosyl hydrolase family 30 signature | 39 | 65 | 1.5E-11 |
| 6 | g1644.t7 | PRINTS | PR00843 | Glycosyl hydrolase family 30 signature | 137 | 154 | 1.5E-11 |
| 7 | g1644.t7 | PRINTS | PR00843 | Glycosyl hydrolase family 30 signature | 213 | 235 | 1.5E-11 |
| 2 | g1644.t7 | Pfam | PF02055 | Glycosyl hydrolase family 30 TIM-barrel domain | 18 | 363 | 2.7E-86 |
| 1 | g1644.t7 | Pfam | PF17189 | Glycosyl hydrolase family 30 beta sandwich domain | 366 | 427 | 1.5E-12 |
| 14 | g1644.t7 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 25 | - |
| 15 | g1644.t7 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 7 | - |
| 16 | g1644.t7 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 8 | 20 | - |
| 17 | g1644.t7 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 21 | 25 | - |
| 13 | g1644.t7 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 26 | 430 | - |
| 8 | g1644.t7 | SUPERFAMILY | SSF51445 | (Trans)glycosidases | 19 | 367 | 4.49E-69 |
| 10 | g1644.t7 | SignalP_EUK | SignalP-TM | SignalP-TM | 1 | 25 | - |
| 9 | g1644.t7 | SignalP_GRAM_POSITIVE | SignalP-TM | SignalP-TM | 1 | 18 | - |
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.
