General information for g10488.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 g10488 is located on chr_1: 10149053..10150176 (+ 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_1 | g10488 | g10488.t1 | TSS | g10488.t1 | 10145731 | 10145731 |
| chr_1 | g10488 | g10488.t1 | isoform | g10488.t1 | 10145998 | 10150176 |
| chr_1 | g10488 | g10488.t1 | exon | g10488.t1.exon1 | 10145998 | 10146068 |
| chr_1 | g10488 | g10488.t1 | cds | g10488.t1.CDS1 | 10145998 | 10146068 |
| chr_1 | g10488 | g10488.t1 | exon | g10488.t1.exon2 | 10148398 | 10149977 |
| chr_1 | g10488 | g10488.t1 | cds | g10488.t1.CDS2 | 10148398 | 10149977 |
| chr_1 | g10488 | g10488.t1 | exon | g10488.t1.exon3 | 10150040 | 10150176 |
| chr_1 | g10488 | g10488.t1 | cds | g10488.t1.CDS3 | 10150040 | 10150176 |
| chr_1 | g10488 | g10488.t1 | TTS | g10488.t1 | 10150366 | 10150366 |
Sequences
>g10488.t1 Gene=g10488 Length=1788
ATGTTTCGTCTACTGCTTTTATATGGCTTCACACTGCTCTCATTTATCGGATTATCTTTA
GCACAACTTGAACCATCATGGGGATATAAATGCGAACATAACAACTGTAAAAAGGTTGAA
TTAACAGCTGATAATAAAAAGACAGCTGTGAGTTTGTCAGTTTGTCGTCTCTATTGCAAT
CTAGATGCAATTGGTACATTATGGCCAAAGCCTACGGGAATTGTACAAATTGGAAATGAT
GTTGTCAAAATCAGCCCAAACGAAATCACATTTAAGACTGAAAGCTTTAAGCGTGAACCA
GCTTATTGGTCTATGGCCACTGAAAGATTCATTGCAATGCAGAAAAAGAAATTACCGTTC
AAATATTCCATTAGATCAGGCGGAAAGTCGCTTATAATTGAAGTGACAGTTGAGAGTGAT
GACATGGTATTCACTTTAGACACCTACGAGGGTTATAAATTGAAAATATCTGAAAATAAC
GATGGTGTTCATGCTGTAATCACAGCTAAGAACTTTTATGGTGCTCGAAATGCTCTCGAA
AGTCTTTCACAACTCATTGTCTATGACAATATTCGAAATGAGATTTTAGCTGTTGCTGCA
GTTGAGATTGAAGATGAACCGAAATTCAAATATCGTGGAATTCTCCTTGACACATCAAGA
AATTATTTTTCTATTGACAGCATTAAGCGTACTATTGAAGGCATGGCAATGGTAAAGCTC
AATACATTCCATTGGCATATTACCGATTCACATAGCTTCCCACTTGTTGTCAAATCACAA
CCAGAACTGTCAAAACTTGGCGCCTATTCACCTGAGAAAATGTACACCCCTGAAGATGTA
GAGGAAGTTGTACGGTTTGCAAAAGCCCGTGGTATTCGAGTACTGCCTGAGTTTGATGCA
CCAGCGCATGTAGGTGAAGGATGGCAACATAAAGATTTGACAACTTGCTTTAATGCGCAA
CCATGGAAAGATTATTGTGTCGAAGCACCATGTGGTCAACTAGACCCATCAAAAGATGAG
GTTTACAATGTATTGGAAGATATTTATCGTGAAATGATTGAACATTTTCAATATCCAGAT
ATATTTCATATGGGTGGTGATGAAGTTTCTGTCAGTTGTTGGAATTCAAGCTCATCATTG
CAGAATTGGATGATAGCAAAAGGATGGAATTTGAATGAAAGTGATTTTATGAAATTGTGG
GGTTATTTTCAGAACAATGCACTTGAAAGATTAGATAAAGCTAACTTTAAAAAAGTTCCG
ATTATTTTATGGACAAGTCGATTGACTGAAGAGCCTTTCTTATCACAATATCTTAATAAT
CAACGTTACATAATTCAAATTTGGACGAAAGGAGATGACCCTCAAGTACAGACGATTCTT
GAGAAAGGTTTCAAAATGATTGTATCAAATTATGATGCACTCTATCTTGACTGTGGTTTT
GGTGCTTGGGTAACTGAAGGTAATAATTGGTGTTCTCCATACATCGGTTGGCAGAAAATT
TACGATAATCGAATGGAGACTATTGCCGGTTCTTATGTCAATCAAGTTTATGGTGCTGAG
GCTGCTTTATGGACTGAACAAGTCGATGAGTGGACATTAGATGCTCGTCTTTGGCCTAGA
GTATCTGCAATGGCTGAAAGATTATGGTCAAATCCTGAAGATGGATGGAGAGCAGCAGAA
TCTCGAATGCTTGTTAATCGAAAGCGTTTAGTTGATATTGGTGGACTTTCAGCAGAAAGA
TTACAGCCAGAATGGTGTCTTCAAAATGAAGGCGATTGTCCTATTTAA
>g10488.t1 Gene=g10488 Length=595
MFRLLLLYGFTLLSFIGLSLAQLEPSWGYKCEHNNCKKVELTADNKKTAVSLSVCRLYCN
LDAIGTLWPKPTGIVQIGNDVVKISPNEITFKTESFKREPAYWSMATERFIAMQKKKLPF
KYSIRSGGKSLIIEVTVESDDMVFTLDTYEGYKLKISENNDGVHAVITAKNFYGARNALE
SLSQLIVYDNIRNEILAVAAVEIEDEPKFKYRGILLDTSRNYFSIDSIKRTIEGMAMVKL
NTFHWHITDSHSFPLVVKSQPELSKLGAYSPEKMYTPEDVEEVVRFAKARGIRVLPEFDA
PAHVGEGWQHKDLTTCFNAQPWKDYCVEAPCGQLDPSKDEVYNVLEDIYREMIEHFQYPD
IFHMGGDEVSVSCWNSSSSLQNWMIAKGWNLNESDFMKLWGYFQNNALERLDKANFKKVP
IILWTSRLTEEPFLSQYLNNQRYIIQIWTKGDDPQVQTILEKGFKMIVSNYDALYLDCGF
GAWVTEGNNWCSPYIGWQKIYDNRMETIAGSYVNQVYGAEAALWTEQVDEWTLDARLWPR
VSAMAERLWSNPEDGWRAAESRMLVNRKRLVDIGGLSAERLQPEWCLQNEGDCPI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 24 | g10488.t1 | CDD | cd06562 | GH20_HexA_HexB-like | 209 | 571 | 1.20726E-160 |
| 16 | g10488.t1 | Gene3D | G3DSA:3.30.379.10 | Chitobiase | 24 | 206 | 1.2E-48 |
| 17 | g10488.t1 | Gene3D | G3DSA:3.20.20.80 | Glycosidases | 207 | 594 | 1.2E-149 |
| 3 | g10488.t1 | PANTHER | PTHR22600 | BETA-HEXOSAMINIDASE | 56 | 593 | 1.1E-159 |
| 4 | g10488.t1 | PANTHER | PTHR22600:SF3 | BETA-HEXOSAMINIDASE FDL-RELATED | 56 | 593 | 1.1E-159 |
| 23 | g10488.t1 | PIRSF | PIRSF001093 | B-hxosamndse_ab_euk_ | 6 | 595 | 2.6E-163 |
| 11 | g10488.t1 | PRINTS | PR00738 | Glycosyl hydrolase family 20 signature | 165 | 185 | 4.4E-52 |
| 7 | g10488.t1 | PRINTS | PR00738 | Glycosyl hydrolase family 20 signature | 203 | 220 | 4.4E-52 |
| 12 | g10488.t1 | PRINTS | PR00738 | Glycosyl hydrolase family 20 signature | 232 | 253 | 4.4E-52 |
| 6 | g10488.t1 | PRINTS | PR00738 | Glycosyl hydrolase family 20 signature | 286 | 303 | 4.4E-52 |
| 10 | g10488.t1 | PRINTS | PR00738 | Glycosyl hydrolase family 20 signature | 334 | 352 | 4.4E-52 |
| 5 | g10488.t1 | PRINTS | PR00738 | Glycosyl hydrolase family 20 signature | 357 | 370 | 4.4E-52 |
| 9 | g10488.t1 | PRINTS | PR00738 | Glycosyl hydrolase family 20 signature | 516 | 532 | 4.4E-52 |
| 8 | g10488.t1 | PRINTS | PR00738 | Glycosyl hydrolase family 20 signature | 533 | 550 | 4.4E-52 |
| 1 | g10488.t1 | Pfam | PF14845 | beta-acetyl hexosaminidase like | 67 | 185 | 1.2E-10 |
| 2 | g10488.t1 | Pfam | PF00728 | Glycosyl hydrolase family 20, catalytic domain | 209 | 551 | 3.5E-93 |
| 19 | g10488.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 21 | - |
| 20 | g10488.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 3 | - |
| 21 | g10488.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 4 | 16 | - |
| 22 | g10488.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 17 | 21 | - |
| 18 | g10488.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 22 | 595 | - |
| 13 | g10488.t1 | SUPERFAMILY | SSF55545 | beta-N-acetylhexosaminidase-like domain | 67 | 208 | 5.23E-21 |
| 14 | g10488.t1 | SUPERFAMILY | SSF51445 | (Trans)glycosidases | 209 | 562 | 5.88E-109 |
| 15 | g10488.t1 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 21 | - |
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.
