General information for g10923.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Acidic mammalian chitinase.
Parent gene
- The parent gene g10923 is located on chr_1: 12731685..12732633 (+ 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 | g10923 | g10923.t1 | TSS | g10923.t1 | 12728977 | 12728977 |
| chr_1 | g10923 | g10923.t1 | isoform | g10923.t1 | 12729026 | 12732633 |
| chr_1 | g10923 | g10923.t1 | exon | g10923.t1.exon1 | 12729026 | 12729547 |
| chr_1 | g10923 | g10923.t1 | cds | g10923.t1.CDS1 | 12729026 | 12729547 |
| chr_1 | g10923 | g10923.t1 | exon | g10923.t1.exon2 | 12729608 | 12730370 |
| chr_1 | g10923 | g10923.t1 | cds | g10923.t1.CDS2 | 12729608 | 12730370 |
| chr_1 | g10923 | g10923.t1 | exon | g10923.t1.exon3 | 12730804 | 12730846 |
| chr_1 | g10923 | g10923.t1 | cds | g10923.t1.CDS3 | 12730804 | 12730846 |
| chr_1 | g10923 | g10923.t1 | exon | g10923.t1.exon4 | 12730945 | 12730988 |
| chr_1 | g10923 | g10923.t1 | cds | g10923.t1.CDS4 | 12730945 | 12730988 |
| chr_1 | g10923 | g10923.t1 | exon | g10923.t1.exon5 | 12731055 | 12731141 |
| chr_1 | g10923 | g10923.t1 | cds | g10923.t1.CDS5 | 12731055 | 12731141 |
| chr_1 | g10923 | g10923.t1 | exon | g10923.t1.exon6 | 12731206 | 12731627 |
| chr_1 | g10923 | g10923.t1 | cds | g10923.t1.CDS6 | 12731206 | 12731627 |
| chr_1 | g10923 | g10923.t1 | exon | g10923.t1.exon7 | 12731685 | 12732045 |
| chr_1 | g10923 | g10923.t1 | cds | g10923.t1.CDS7 | 12731685 | 12732045 |
| chr_1 | g10923 | g10923.t1 | exon | g10923.t1.exon8 | 12732104 | 12732633 |
| chr_1 | g10923 | g10923.t1 | cds | g10923.t1.CDS8 | 12732104 | 12732633 |
| chr_1 | g10923 | g10923.t1 | TTS | g10923.t1 | NA | NA |
Sequences
>g10923.t1 Gene=g10923 Length=2772
ATGGATTATTTTAGTTTATTGCCAAACGAGATTATCTCAGACCATATATTCATTTATTTA
AAGGCAATTCCTTTCACAGAAAGACCATCGTATTTTCAAAGCGATCTTAAAAATCTTACA
TTGGTTTGCAAAAGATTTAACGAAATAATTGGAACTTCAAAGGAACTAATTTCCAATTTT
GAGCTAATTATATCAACTAAAACATTGGAGAATGGATTATTCAACGCATATTTTGTTCGC
AAGTATCAAAAAATTATAGTAATTGACTCTGACATTAATAAACAAAAAGAACTTTTACAA
GTTTTTGAAAGATATGGAAGAAATCTGGAAATATTGACAATAGTTGGCAATCTTTTATTG
ATTTATGGAAGATCTTTGTTTCTTAATACACCAAAACTTCATACTGTGATTGCATCTTGC
TTTAAAACAATTAAATATAACAATTTAACTCAAAAGTGTCAAATAACAGATTTACCAAAT
TTAAAGAATTTGATATTTACGGGCAATAATAGTTCTTATCCAGTATTGAATGTTTTCTCC
AATTGCAATCTAGAAAATTTATATATTGGCTATGCACAAAATTTAGCATACCCGAAGATT
ACAAATTGGAAGTTAAAAAAGTTTTCTGTGCTATCAATGTCAAATAATACCTTTAGATTT
CTAGATGAGCAGAAACAATATTTAGAAGATTTGGAAGTTTACGTTGATAATGCAGAATTT
TTGCAATTTATCATGAATAACTTAAAAGTTAAAAAGCTCAAATTGCAGTTTACTAAGAAT
GTAAACGTACCGAAAGACATTCAGAAACTTAATTCCAACTTAAAGAATTTAGTTATTGAA
CATGTGAATAACAGAAAAACTACCAAACAAATGATTCTGCAACTATTGAGATACTATCCC
TGCCTGGAAACAATTAAATATGATGCTACTTATACTGGTGTGTTTGATGAAGAAAAAATT
AACATGTTGGATCTTCATACTTTGGATGTTTCTTTGCCTGATAGTATCATCATTTTAAGT
TGCTATATGCCGAAACTGCAAAAATTGACGATCAAAAGTTGTCGTAAATATAATGAGCTT
TATCACTCGCAAATTTTTGATTCAGTAGAAGATTTAACATTCATTTGTGGTCCATATGTG
AAGAATGTAATTCTGAGATTCCCAAATGTAAAATCATTGACATTGAATCATGTTTTATTA
AAGAAGAATGAATTCATCGATTTGGTTAGTAGCTTATCTGAATTAAAGATGATCAAACTA
TTCAAACCAATATGGGACAAAAGAGGGATAATGACAAAACAAAAATATGAACTCATAAGT
AATCAGAGGAACACTGGAAGTAGGAATTTTCTAGCAATAAGTTTATTAACATTGCTGTGC
ATATTGCTGTTTTCATGCATATTTATATTTTGGGATGAAATTTACAACAAGAGATTGAAT
ATACCTCAAAAATCTAATGACATTCCACATTTATGGCATAATAGATTAGAATTTTATAAT
AAAAAATTGCATGCAAGCATTAGTGATATTGATAAAAACAATAGTGTAAACGATAATGAT
AAAATCACAATAAGTAGCTCAAAATTCGGAAACTATATTTATTCAAGTGAGCGAGCAAAG
TATGATAAAAAATTAATTTGTTATTACACAACACCAAAATTCGTGAGCAATGGTCGACAA
AGAACAAGAAGAAGTAGCTTAAATGTCAACGAAAATCTGTTGAAAATTCAAGACATTAAT
CCCTATTTATGCACGCACTTGAACATTGGCATTATAGACATCGAAAATTGTACACTCCAG
CTTGATGATGATCTTATTAATGCCTTTCGTGACGGCAATGAGCTCAAAAAGAAAAATGAT
CGTCTCAAACTAATGCTTTGGGTTGGTGGTGGCGATGAATCTTATGGATTTCCAGAAATG
ATTGCTAATCATTCAAATCGAAAGCTTTTTATTCAGTCAGTGAAAAAAGCACTCGAGACA
TATTCACTTGATGGCATTGACATTGATTTTGAATTTCCTGATGGAAGTAATTCACAAAGA
ATTCATTTCATGCAACTTCTTCACGAAATTCGTCGCGAATACCAACGTGAGCACACAACT
TACTTATTATCGATAGCAGTTGCAGCACCTGCAGTATTTGTCGATATGTGTTATGATGTT
CCGATGATTAACGAAAATGTGGATTATGTGAACATTATGACATACGATTATCACTTTTAT
TCCAAAGGAACTCCCTATACAGGTTTAAACTCGCCGCTTTATGCAAAGTCAAATGAGATC
GGTTTTTTTGAAACATTAAACATAAATTATTCTGTTAATTACTGGATTTCAAAAGGATTA
GATCGGTCAAAAATTGTAGTCGGATTAGCAACTTATGCTCACTCATTTCGACTTGTTAAT
CCATTCAACACCAAAATTTATGCACCTGCGGAAGACTTCGGAAGTGTAGGAGTGTTAGGA
TTTGTGTCATATTCAGAAATTTGTTGGTTCATAGAGACAAATTTCAATGTGAAAATTGAA
TATGATGCTGAAACCTGCTCACCATTTTTACACACTGGTCTAGAATGGATATCATATGAT
GATGAGAGATCCATTGAATGCAAGGCAAATTATATTAAAAACAACGACTTTGGAGGCATT
ATGGTGTTCTCATTAAATACTGATGATTTTAAATTTACTTGCTCAGCCAAAAAGTATGCC
GGTGGTGAGAAGAAAAACTTTCCTTTATTGAGAAAGATTCATTCAGTTTTATTTCGAAAT
TCATCACATTAA
>g10923.t1 Gene=g10923 Length=923
MDYFSLLPNEIISDHIFIYLKAIPFTERPSYFQSDLKNLTLVCKRFNEIIGTSKELISNF
ELIISTKTLENGLFNAYFVRKYQKIIVIDSDINKQKELLQVFERYGRNLEILTIVGNLLL
IYGRSLFLNTPKLHTVIASCFKTIKYNNLTQKCQITDLPNLKNLIFTGNNSSYPVLNVFS
NCNLENLYIGYAQNLAYPKITNWKLKKFSVLSMSNNTFRFLDEQKQYLEDLEVYVDNAEF
LQFIMNNLKVKKLKLQFTKNVNVPKDIQKLNSNLKNLVIEHVNNRKTTKQMILQLLRYYP
CLETIKYDATYTGVFDEEKINMLDLHTLDVSLPDSIIILSCYMPKLQKLTIKSCRKYNEL
YHSQIFDSVEDLTFICGPYVKNVILRFPNVKSLTLNHVLLKKNEFIDLVSSLSELKMIKL
FKPIWDKRGIMTKQKYELISNQRNTGSRNFLAISLLTLLCILLFSCIFIFWDEIYNKRLN
IPQKSNDIPHLWHNRLEFYNKKLHASISDIDKNNSVNDNDKITISSSKFGNYIYSSERAK
YDKKLICYYTTPKFVSNGRQRTRRSSLNVNENLLKIQDINPYLCTHLNIGIIDIENCTLQ
LDDDLINAFRDGNELKKKNDRLKLMLWVGGGDESYGFPEMIANHSNRKLFIQSVKKALET
YSLDGIDIDFEFPDGSNSQRIHFMQLLHEIRREYQREHTTYLLSIAVAAPAVFVDMCYDV
PMINENVDYVNIMTYDYHFYSKGTPYTGLNSPLYAKSNEIGFFETLNINYSVNYWISKGL
DRSKIVVGLATYAHSFRLVNPFNTKIYAPAEDFGSVGVLGFVSYSEICWFIETNFNVKIE
YDAETCSPFLHTGLEWISYDDERSIECKANYIKNNDFGGIMVFSLNTDDFKFTCSAKKYA
GGEKKNFPLLRKIHSVLFRNSSH
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g10923.t1 | Gene3D | G3DSA:3.20.20.80 | Glycosidases | 572 | 890 | 8.2E-89 |
| 8 | g10923.t1 | Gene3D | G3DSA:3.10.50.10 | - | 791 | 859 | 8.2E-89 |
| 2 | g10923.t1 | PANTHER | PTHR11177 | CHITINASE | 569 | 919 | 3.9E-126 |
| 3 | g10923.t1 | PANTHER | PTHR11177:SF324 | CHITINASE 11 | 569 | 919 | 3.9E-126 |
| 1 | g10923.t1 | Pfam | PF00704 | Glycosyl hydrolases family 18 | 545 | 888 | 2.4E-66 |
| 10 | g10923.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 449 | - |
| 11 | g10923.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 450 | 471 | - |
| 9 | g10923.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 472 | 923 | - |
| 14 | g10923.t1 | ProSitePatterns | PS01095 | Chitinases family 18 active site. | 663 | 671 | - |
| 15 | g10923.t1 | SMART | SM00636 | 2g34 | 543 | 888 | 1.8E-79 |
| 5 | g10923.t1 | SUPERFAMILY | SSF52058 | L domain-like | 30 | 373 | 3.88E-9 |
| 6 | g10923.t1 | SUPERFAMILY | SSF51445 | (Trans)glycosidases | 541 | 898 | 3.77E-70 |
| 4 | g10923.t1 | SUPERFAMILY | SSF54556 | Chitinase insertion domain | 792 | 859 | 3.83E-10 |
| 13 | g10923.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 449 | 471 | - |
| 12 | g10923.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 701 | 723 | - |
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:0004553 | hydrolase activity, hydrolyzing O-glycosyl compounds | MF |
| GO:0008061 | chitin binding | MF |
| GO:0005975 | carbohydrate metabolic process | BP |
KEGG
Orthology
- This transcript has been annotated with K01183 (chitinase)
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.
