General information for g15688.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as 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.t1 | TTS | g15688.t1 | 6396093 | 6396093 |
| chr_4 | g15688 | g15688.t1 | isoform | g15688.t1 | 6396300 | 6399074 |
| chr_4 | g15688 | g15688.t1 | exon | g15688.t1.exon1 | 6396300 | 6396501 |
| chr_4 | g15688 | g15688.t1 | cds | g15688.t1.CDS1 | 6396300 | 6396501 |
| chr_4 | g15688 | g15688.t1 | exon | g15688.t1.exon2 | 6396576 | 6396783 |
| chr_4 | g15688 | g15688.t1 | cds | g15688.t1.CDS2 | 6396576 | 6396783 |
| chr_4 | g15688 | g15688.t1 | exon | g15688.t1.exon3 | 6396840 | 6397205 |
| chr_4 | g15688 | g15688.t1 | cds | g15688.t1.CDS3 | 6396840 | 6397205 |
| chr_4 | g15688 | g15688.t1 | exon | g15688.t1.exon4 | 6397259 | 6397574 |
| chr_4 | g15688 | g15688.t1 | cds | g15688.t1.CDS4 | 6397259 | 6397574 |
| chr_4 | g15688 | g15688.t1 | exon | g15688.t1.exon5 | 6398452 | 6398567 |
| chr_4 | g15688 | g15688.t1 | cds | g15688.t1.CDS5 | 6398452 | 6398567 |
| chr_4 | g15688 | g15688.t1 | exon | g15688.t1.exon6 | 6398633 | 6398929 |
| chr_4 | g15688 | g15688.t1 | cds | g15688.t1.CDS6 | 6398633 | 6398929 |
| chr_4 | g15688 | g15688.t1 | exon | g15688.t1.exon7 | 6398984 | 6399074 |
| chr_4 | g15688 | g15688.t1 | cds | g15688.t1.CDS7 | 6398984 | 6399074 |
| chr_4 | g15688 | g15688.t1 | TSS | g15688.t1 | 6399129 | 6399129 |
Sequences
>g15688.t1 Gene=g15688 Length=1596
ATGCACAAAATTTTAATTTTTCTCACATTTTCTGTGACTCTTGCAACTTCCTATATTGTT
GATTATGGGCCAGTCGTGAAAGCAAGTCAAGGTGCTATTTGGCCAAAACCAAAAACTCAG
GTAATAAGTAACAATTTCAACATGCTTCGTCCATCAGAATTTACATTTGAAACTGTCGGT
AATTCATGTGATATTTTACAAAATGCATTGGAACGCTATCACACTATAATTGTGACACAT
TTAAGACGAATAAGAAATCGGGTAAAAAACGATCATGAAAATAATAAATGGAGAAGTAAA
CCCGAATATAGTGGACGATTGACGAGCGTAAAAGTGAACTTGAAACAAAAATGCGAAAAA
ATGCCGCACGTTGATATGGATGAATCATATGATCTTAATATTGCTGAACAACAAGCAACA
ATTGAATCAAATTCAATATGGGGATTATTAAGAGGACTTGAATCATTTTCTCAACTACTT
TATCATTCACCTGATGCGAAATTTCTTCTAATCAATGATACAAATATTTATGATGAACCA
CGCTTCAAACATCGAGGACTTTTAGTAGACACCAGCAGACATTTCATAAGCATTGCAATT
TTAAAAGAAATTCTTGATGGAATGGCTTACAATAAACTTAATGTTTTTCATTGGCACATT
GTTGATGATCATAGTTTTCCATATCAAAGCATAAAATATCCTGAATTAACTCGTGGTGCT
TATCATGAAAGTATGATTTATTCACAACAAGATATTGCTGATATAATTGAATATGCAAGA
ATGAGAGGAATTCGAGTTATGAGTGAATTCGACACACCTGGTCATACTGCATCATGGGGT
GCATCACATCCAGAACTTTTAACAAAATGCGGTGGAATATTTACTGGCAAATATGGTCCA
ATAGATCCAACAATTGAAAGCAATTATGATTTCATCTTCAGTCTTTTTGATGAAATTGTC
GAAGTTTTTCCAGATGTTTATGTTCATTTAGGTGGTGACGAAGTTGGATTTGAATGCTGG
CAATCAAATCAAAATATTTTGAACTTCATGAAACAACATAATATCACATCGTTTGTTCAA
TTAGAAGAATTATACATTCAAAAATTGATTGATAAAGTTCATTCATTAAATGTCAATTCG
ATTGTTTGGCAAGAAGTTTATACAAATGGAGTAAAATTACCCAAAGGCACTGTTGTTCAT
GTATGGACTGGAAATCAAAGAAATTTACTATCGAGAATTACAAGAGACAATATGCCTGCT
TTATTATCTGCTTGTTGGTATTTAGATCATCTTTCGACAGGTGGTGACTGGGTGAAATTT
TATAACTGTGATCCTTGGGATTTCAGTGGTAATGACAATCAGAAAAAATTGGTTCTTGGT
GGTGAAGCTTGCATGTGGAGTGAAGTTGTCGATGATGCAAATATTGTTCAAAGAATTTTT
CCGAGAACTTGTGCAACAGCTGAAAAATTATGGTCAACAGAAGATGTAACAGACATTGAA
GATGCAAAGCAACGACTTGAAGAACATTATTGTAGAATGAGACGAAGAAATATTAATGCT
CAACCTCCAAGTTCACCTGGATTTTGTTTAGTTTAA
>g15688.t1 Gene=g15688 Length=531
MHKILIFLTFSVTLATSYIVDYGPVVKASQGAIWPKPKTQVISNNFNMLRPSEFTFETVG
NSCDILQNALERYHTIIVTHLRRIRNRVKNDHENNKWRSKPEYSGRLTSVKVNLKQKCEK
MPHVDMDESYDLNIAEQQATIESNSIWGLLRGLESFSQLLYHSPDAKFLLINDTNIYDEP
RFKHRGLLVDTSRHFISIAILKEILDGMAYNKLNVFHWHIVDDHSFPYQSIKYPELTRGA
YHESMIYSQQDIADIIEYARMRGIRVMSEFDTPGHTASWGASHPELLTKCGGIFTGKYGP
IDPTIESNYDFIFSLFDEIVEVFPDVYVHLGGDEVGFECWQSNQNILNFMKQHNITSFVQ
LEELYIQKLIDKVHSLNVNSIVWQEVYTNGVKLPKGTVVHVWTGNQRNLLSRITRDNMPA
LLSACWYLDHLSTGGDWVKFYNCDPWDFSGNDNQKKLVLGGEACMWSEVVDDANIVQRIF
PRTCATAEKLWSTEDVTDIEDAKQRLEEHYCRMRRRNINAQPPSSPGFCLV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 24 | g15688.t1 | CDD | cd06562 | GH20_HexA_HexB-like | 182 | 516 | 2.21738E-180 |
| 16 | g15688.t1 | Gene3D | G3DSA:3.30.379.10 | Chitobiase | 28 | 179 | 1.0E-39 |
| 17 | g15688.t1 | Gene3D | G3DSA:3.20.20.80 | Glycosidases | 180 | 531 | 2.1E-130 |
| 3 | g15688.t1 | PANTHER | PTHR22600 | BETA-HEXOSAMINIDASE | 19 | 522 | 1.3E-173 |
| 4 | g15688.t1 | PANTHER | PTHR22600:SF38 | BETA-HEXOSAMINIDASE SUBUNIT BETA | 19 | 522 | 1.3E-173 |
| 23 | g15688.t1 | PIRSF | PIRSF001093 | B-hxosamndse_ab_euk_ | 1 | 531 | 3.8E-178 |
| 5 | g15688.t1 | PRINTS | PR00738 | Glycosyl hydrolase family 20 signature | 139 | 159 | 3.4E-62 |
| 9 | g15688.t1 | PRINTS | PR00738 | Glycosyl hydrolase family 20 signature | 176 | 193 | 3.4E-62 |
| 11 | g15688.t1 | PRINTS | PR00738 | Glycosyl hydrolase family 20 signature | 205 | 226 | 3.4E-62 |
| 8 | g15688.t1 | PRINTS | PR00738 | Glycosyl hydrolase family 20 signature | 258 | 275 | 3.4E-62 |
| 7 | g15688.t1 | PRINTS | PR00738 | Glycosyl hydrolase family 20 signature | 301 | 319 | 3.4E-62 |
| 6 | g15688.t1 | PRINTS | PR00738 | Glycosyl hydrolase family 20 signature | 323 | 336 | 3.4E-62 |
| 10 | g15688.t1 | PRINTS | PR00738 | Glycosyl hydrolase family 20 signature | 458 | 474 | 3.4E-62 |
| 12 | g15688.t1 | PRINTS | PR00738 | Glycosyl hydrolase family 20 signature | 475 | 492 | 3.4E-62 |
| 1 | g15688.t1 | Pfam | PF14845 | beta-acetyl hexosaminidase like | 33 | 159 | 4.0E-21 |
| 2 | g15688.t1 | Pfam | PF00728 | Glycosyl hydrolase family 20, catalytic domain | 182 | 493 | 4.7E-85 |
| 19 | g15688.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 17 | - |
| 20 | g15688.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 3 | - |
| 21 | g15688.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 4 | 12 | - |
| 22 | g15688.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 13 | 17 | - |
| 18 | g15688.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 18 | 531 | - |
| 13 | g15688.t1 | SUPERFAMILY | SSF55545 | beta-N-acetylhexosaminidase-like domain | 33 | 181 | 1.6E-27 |
| 14 | g15688.t1 | SUPERFAMILY | SSF51445 | (Trans)glycosidases | 182 | 529 | 9.08E-113 |
| 15 | g15688.t1 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 17 | - |
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 transcript has been annotated with K12373 (hexosaminidase)
Pathway
- This transcript belongs to the following pathways
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.
