General information for g5193.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Chitooligosaccharidolytic beta-N-acetylglucosaminidase.
Parent gene
- The parent gene g5193 is located on chr_2: 7604723..7605657 (+ 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 | g5193 | g5193.t1 | isoform | g5193.t1 | 7602877 | 7604723 |
| chr_2 | g5193 | g5193.t1 | exon | g5193.t1.exon1 | 7602877 | 7602929 |
| chr_2 | g5193 | g5193.t1 | cds | g5193.t1.CDS1 | 7602877 | 7602929 |
| chr_2 | g5193 | g5193.t1 | exon | g5193.t1.exon2 | 7603007 | 7604723 |
| chr_2 | g5193 | g5193.t1 | cds | g5193.t1.CDS2 | 7603007 | 7604723 |
| chr_2 | g5193 | g5193.t1 | TSS | g5193.t1 | NA | NA |
| chr_2 | g5193 | g5193.t1 | TTS | g5193.t1 | NA | NA |
Sequences
>g5193.t1 Gene=g5193 Length=1770
ATGTTAAAAGCACTAATTTTACAAGTCATCGTTTTGATTGGATCATCACTCAGTTATCAA
ATAAATGGAAAATGGTACTGCCGAAATAATATGGATTGCTTGCCATGGGAGTCTAAAAAC
ACAGAAACACTGCCAAAAATATATGAGACCCAAAATTTGTGTCGTCTCATGTGTGGTAAA
TTTCGTGGTCTTTGGCCACAAGTCACTAGAATTTGTAATATAGAAAAATCAGTGAATCCA
GTGAATTTTGAACTTATAACTTTCGATTACCCAAATGATAATGAAAATATCAAGGATTTT
TATGAACAAGTTACATTATTATTTAAAAGAAATCTCATTGAAGAATGCGGTAAATCATGT
TCCATGCAATCAAATAATTCATTGCATATAAGAATTTCAGTTGTCGATAAAAGTCTTATG
TTGAACTCTCTGACCGATGAGTCTTATCGCTTGAATATTTCGACAATGACCGATAATGAA
ATAACAGTGCAAATATCCGCAAAGACAATTTTTGGCACTCGACACGCCTTAGAGACATTG
AGCCAATTAATGGTAAAAACAGTTGATGATAATGATCAGAATGGCCTTCTTATAGTTTCT
AGTGCTGACATACTTGATAAACCTTTTTATCAGCATAGAGGCCTTCTTATTGATACTGCT
CGACATTTCATTTCAATTGCGTCTTTAATGAAAATCCTTGATGGCATGTCAGCCAATAAA
ATGAATGTGTTTCATTGGCACATTACTGATTCACAAAGTTTTCCTATGGAAATTAAAAGA
CGACCAGAAATGCATGGAAATGGTGCATTTTCTAAAGATAAAGTTTATTTTAAATCTGAT
ATTGATAAAATTGTTCAATATGCAAAATATCGTGGTATTCGAGTGATTTTTGAGCTTGAT
GCGCCTGCTCATGCGGGAAAAGGTTGGGAATGGGGTGAAAAATCTGGCTTAGGAAAACTT
GCAGTTTGTGTTGATGATCAGCCATGGAGAAAATCGTGCATTCAACCAAATTGTGGACAA
TTAAATCCATCAAATGAAAACCTTTATTCAGTATTGCATGACATTTATCAAGATATTCGT
GATTATAAAGAGAAAAATGAATTTATACACATGGGTGGCGATGAAGTCTTTGTCAAGTGT
TGGAATAATACAAAAGAAATCACAGACTATATGGCAACAAAAAATTATGATCGCAATAAT
GTCATTGGCTTTTTACAGTTATGGTCTGAATTTCAAGGAAAAGCTTTAAATATTTGGGAT
AACATCACAGATGAAAAAGAATCAATTGTAATGTGGTCAAGTGAATTGACACTGCCTGAA
AATATTGAAAAATTCTTACCTAAAGAACGTTATATCATTCAAACTTGGATTCCAAATAAT
TCTGATATTCCTCAAAAGTTGTTAGATAAAGGCTATCGACTCATAATGACTACAAAAAAT
GCTTGGTATTTTGACCATGGTTTTTGGGGCAATACAAAATATTATAATTGGAAAACAGTT
TATGCAAATACTCTTCCACGAAATGAGTTGGTTTTAGGTGGTGAAGTTTGCATGTGGTCA
GAATATTTGGATGAACATTCAATTGAAATGAAAATTTTTCCACGTCTTAATGCTGCTGCA
GAACGTTTGTGGGCAAATCCAAAAACTGATCTTAATGCTGTAGAATCCAGATTTTATCGT
CAACGTGAGAGAATCGTTGCAAAAGGAATTCAAGCTGATGCTATTTTAACTGAATATTGT
ACATTGTTTGAAGGTGAATGCCGTGGTTAA
>g5193.t1 Gene=g5193 Length=589
MLKALILQVIVLIGSSLSYQINGKWYCRNNMDCLPWESKNTETLPKIYETQNLCRLMCGK
FRGLWPQVTRICNIEKSVNPVNFELITFDYPNDNENIKDFYEQVTLLFKRNLIEECGKSC
SMQSNNSLHIRISVVDKSLMLNSLTDESYRLNISTMTDNEITVQISAKTIFGTRHALETL
SQLMVKTVDDNDQNGLLIVSSADILDKPFYQHRGLLIDTARHFISIASLMKILDGMSANK
MNVFHWHITDSQSFPMEIKRRPEMHGNGAFSKDKVYFKSDIDKIVQYAKYRGIRVIFELD
APAHAGKGWEWGEKSGLGKLAVCVDDQPWRKSCIQPNCGQLNPSNENLYSVLHDIYQDIR
DYKEKNEFIHMGGDEVFVKCWNNTKEITDYMATKNYDRNNVIGFLQLWSEFQGKALNIWD
NITDEKESIVMWSSELTLPENIEKFLPKERYIIQTWIPNNSDIPQKLLDKGYRLIMTTKN
AWYFDHGFWGNTKYYNWKTVYANTLPRNELVLGGEVCMWSEYLDEHSIEMKIFPRLNAAA
ERLWANPKTDLNAVESRFYRQRERIVAKGIQADAILTEYCTLFEGECRG
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 24 | g5193.t1 | CDD | cd06562 | GH20_HexA_HexB-like | 210 | 569 | 1.10739E-150 |
| 16 | g5193.t1 | Gene3D | G3DSA:3.30.379.10 | Chitobiase | 21 | 207 | 6.0E-37 |
| 17 | g5193.t1 | Gene3D | G3DSA:3.20.20.80 | Glycosidases | 208 | 589 | 1.3E-118 |
| 3 | g5193.t1 | PANTHER | PTHR22600 | BETA-HEXOSAMINIDASE | 13 | 587 | 1.2E-220 |
| 4 | g5193.t1 | PANTHER | PTHR22600:SF42 | BETA-HEXOSAMINIDASE | 13 | 587 | 1.2E-220 |
| 23 | g5193.t1 | PIRSF | PIRSF001093 | B-hxosamndse_ab_euk_ | 1 | 589 | 2.5E-136 |
| 11 | g5193.t1 | PRINTS | PR00738 | Glycosyl hydrolase family 20 signature | 163 | 183 | 3.5E-51 |
| 10 | g5193.t1 | PRINTS | PR00738 | Glycosyl hydrolase family 20 signature | 204 | 221 | 3.5E-51 |
| 6 | g5193.t1 | PRINTS | PR00738 | Glycosyl hydrolase family 20 signature | 233 | 254 | 3.5E-51 |
| 9 | g5193.t1 | PRINTS | PR00738 | Glycosyl hydrolase family 20 signature | 287 | 304 | 3.5E-51 |
| 5 | g5193.t1 | PRINTS | PR00738 | Glycosyl hydrolase family 20 signature | 341 | 359 | 3.5E-51 |
| 8 | g5193.t1 | PRINTS | PR00738 | Glycosyl hydrolase family 20 signature | 364 | 377 | 3.5E-51 |
| 12 | g5193.t1 | PRINTS | PR00738 | Glycosyl hydrolase family 20 signature | 511 | 527 | 3.5E-51 |
| 7 | g5193.t1 | PRINTS | PR00738 | Glycosyl hydrolase family 20 signature | 528 | 545 | 3.5E-51 |
| 1 | g5193.t1 | Pfam | PF14845 | beta-acetyl hexosaminidase like | 121 | 183 | 3.9E-11 |
| 2 | g5193.t1 | Pfam | PF00728 | Glycosyl hydrolase family 20, catalytic domain | 210 | 546 | 4.0E-83 |
| 19 | g5193.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 18 | - |
| 20 | g5193.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 3 | - |
| 21 | g5193.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 4 | 13 | - |
| 22 | g5193.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 14 | 18 | - |
| 18 | g5193.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 19 | 589 | - |
| 13 | g5193.t1 | SUPERFAMILY | SSF55545 | beta-N-acetylhexosaminidase-like domain | 82 | 208 | 1.62E-15 |
| 14 | g5193.t1 | SUPERFAMILY | SSF51445 | (Trans)glycosidases | 210 | 548 | 4.71E-95 |
| 15 | g5193.t1 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 18 | - |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5193/g5193.t1; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5193.t1.fa.iupred3.txt does not exist
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.
