General information for g15688.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Beta-hexosaminidase subunit beta.
Parent gene
- The parent gene g15688 is located on chr_4: 6397262..6399074 (- 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 | g15688 | g15688.t2 | TTS | g15688.t2 | 6396093 | 6396093 |
| chr_4 | g15688 | g15688.t2 | isoform | g15688.t2 | 6396300 | 6397198 |
| chr_4 | g15688 | g15688.t2 | exon | g15688.t2.exon1 | 6396300 | 6396501 |
| chr_4 | g15688 | g15688.t2 | cds | g15688.t2.CDS1 | 6396300 | 6396501 |
| chr_4 | g15688 | g15688.t2 | exon | g15688.t2.exon2 | 6396576 | 6396783 |
| chr_4 | g15688 | g15688.t2 | cds | g15688.t2.CDS2 | 6396576 | 6396783 |
| chr_4 | g15688 | g15688.t2 | exon | g15688.t2.exon3 | 6396840 | 6397198 |
| chr_4 | g15688 | g15688.t2 | cds | g15688.t2.CDS3 | 6396840 | 6396978 |
| chr_4 | g15688 | g15688.t2 | TSS | g15688.t2 | NA | NA |
Sequences
>g15688.t2 Gene=g15688 Length=769
TGCATCATGGGGTGCATCACATCCAGAACTTTTAACAAAATGCGGTGGAATATTTACTGG
CAAATATGGTCCAATAGATCCAACAATTGAAAGCAATTATGATTTCATCTTCAGTCTTTT
TGATGAAATTGTCGAAGTTTTTCCAGATGTTTATGTTCATTTAGGTGGTGACGAAGTTGG
ATTTGAATGCTGGCAATCAAATCAAAATATTTTGAACTTCATGAAACAACATAATATCAC
ATCGTTTGTTCAATTAGAAGAATTATACATTCAAAAATTGATTGATAAAGTTCATTCATT
AAATGTCAATTCGATTGTTTGGCAAGAAGTTTATACAAATGGAGTAAAATTACCCAAAGG
CACTGTTGTTCATGTATGGACTGGAAATCAAAGAAATTTACTATCGAGAATTACAAGAGA
CAATATGCCTGCTTTATTATCTGCTTGTTGGTATTTAGATCATCTTTCGACAGGTGGTGA
CTGGGTGAAATTTTATAACTGTGATCCTTGGGATTTCAGTGGTAATGACAATCAGAAAAA
ATTGGTTCTTGGTGGTGAAGCTTGCATGTGGAGTGAAGTTGTCGATGATGCAAATATTGT
TCAAAGAATTTTTCCGAGAACTTGTGCAACAGCTGAAAAATTATGGTCAACAGAAGATGT
AACAGACATTGAAGATGCAAAGCAACGACTTGAAGAACATTATTGTAGAATGAGACGAAG
AAATATTAATGCTCAACCTCCAAGTTCACCTGGATTTTGTTTAGTTTAA
>g15688.t2 Gene=g15688 Length=182
MKQHNITSFVQLEELYIQKLIDKVHSLNVNSIVWQEVYTNGVKLPKGTVVHVWTGNQRNL
LSRITRDNMPALLSACWYLDHLSTGGDWVKFYNCDPWDFSGNDNQKKLVLGGEACMWSEV
VDDANIVQRIFPRTCATAEKLWSTEDVTDIEDAKQRLEEHYCRMRRRNINAQPPSSPGFC
LV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g15688.t2 | Gene3D | G3DSA:3.20.20.80 | Glycosidases | 1 | 182 | 0e+00 |
| 2 | g15688.t2 | PANTHER | PTHR22600 | BETA-HEXOSAMINIDASE | 6 | 173 | 0e+00 |
| 3 | g15688.t2 | PANTHER | PTHR22600:SF38 | BETA-HEXOSAMINIDASE SUBUNIT BETA | 6 | 173 | 0e+00 |
| 5 | g15688.t2 | PRINTS | PR00738 | Glycosyl hydrolase family 20 signature | 109 | 125 | 3e-07 |
| 4 | g15688.t2 | PRINTS | PR00738 | Glycosyl hydrolase family 20 signature | 126 | 143 | 3e-07 |
| 1 | g15688.t2 | Pfam | PF00728 | Glycosyl hydrolase family 20, catalytic domain | 1 | 144 | 0e+00 |
| 6 | g15688.t2 | SUPERFAMILY | SSF51445 | (Trans)glycosidases | 1 | 180 | 0e+00 |
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:0004563 | beta-N-acetylhexosaminidase activity | MF |
| GO:0004553 | hydrolase activity, hydrolyzing O-glycosyl compounds | MF |
| 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.
