General information for g136.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Acidic mammalian chitinase.
Parent gene
- The parent gene g136 is located on chr_3: 1267923..1269950 (- 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_3 | g136 | g136.t2 | isoform | g136.t2 | 1267923 | 1269950 |
| chr_3 | g136 | g136.t2 | exon | g136.t2.exon1 | 1267923 | 1268543 |
| chr_3 | g136 | g136.t2 | cds | g136.t2.CDS1 | 1267924 | 1268543 |
| chr_3 | g136 | g136.t2 | exon | g136.t2.exon2 | 1268599 | 1268793 |
| chr_3 | g136 | g136.t2 | cds | g136.t2.CDS2 | 1268599 | 1268793 |
| chr_3 | g136 | g136.t2 | exon | g136.t2.exon3 | 1269233 | 1269415 |
| chr_3 | g136 | g136.t2 | cds | g136.t2.CDS3 | 1269233 | 1269415 |
| chr_3 | g136 | g136.t2 | exon | g136.t2.exon4 | 1269884 | 1269950 |
| chr_3 | g136 | g136.t2 | cds | g136.t2.CDS4 | 1269884 | 1269950 |
| chr_3 | g136 | g136.t2 | TSS | g136.t2 | 1269965 | 1269965 |
| chr_3 | g136 | g136.t2 | TTS | g136.t2 | NA | NA |
Sequences
>g136.t2 Gene=g136 Length=1066
ATGAAAGTGTTTGTAGTAATTTTATTTTTGACTTTTGTTGCTCTGTTTCTTCAGGCAAAC
GCTGAAAAAAAAATTGTTTGCTACTGGGGAACTTGGGCTGTTTATCGACAAGGAAAGGCA
AAATTTACAATTGATGACATTGATCCTCAAATATGCACTCATATGATTTATACTTTCCTT
GGTGCTAACGAAGATGGAACTTGGAAATCATTGGATCCATATTTGGATTTACCTGACAAT
TATGGAAAAGGTTACATTTCAAAGTTCATAAAATTACGAAAAATAAACCCAAAACTAAAA
TTGATGGCATCAATTGGTGGTTGGAATATGGGTACAGCTCTTTTCACAAGAATTGCTTCT
AATCCTGGTTTAAGATCGAGATTTGCATCAAGTGTTTTAGATTTATTGCAAAAGTTTGAC
TTTGATGGTTTTGATTTGGATTGGGAATATCCAAATGACAAAGTAATTTTTATTGAAATG
TTGAAAGAATTGAAGAACAAATTGCAACCAGCTGGAAAAATATTTACGATTGCTGTAGGT
GCAACAGCTTATCGAGCTCATGAGTCTTATGACATTGGAAATATTATTCCACAAGTTGAT
TTTATTAATTTAATGACTTATGATTTGCATGGTTCTTGGGATCATAAAACAGGAATAAAT
TCTCCACTTTATTCCAATGATCAATTAAGTGTCAACGATTGTGTTAAATTTTGGCTTTCT
CAAGGCTGTCCAAAGGAAAAATTAATTTTAGGAATTTCACTTTATGGTCGATCATTTACA
TTGGCAAATCAAAATAATCATGGAATTGGACAATCAGCATGGAATGGTAGAGGTGGAAAA
TTCGTCCCAGGTGAAGCTGGATTTTTGCCTTATAATGAAATTTGCACAAATGTGAAATTT
AATGGATGGACAAGAGTTTTTGATCAATCACAAAAAGCTCCTTATTCTTACAAAGGCGAT
CAATGGGTTGGCTATGATGATTTGGAATCAATTAATTTAAAATTGGATTACATCATAAAT
AATAATCTTGGTGGTGCAATGTTTTGGAGCATTGAAACTGACGATT
>g136.t2 Gene=g136 Length=355
MKVFVVILFLTFVALFLQANAEKKIVCYWGTWAVYRQGKAKFTIDDIDPQICTHMIYTFL
GANEDGTWKSLDPYLDLPDNYGKGYISKFIKLRKINPKLKLMASIGGWNMGTALFTRIAS
NPGLRSRFASSVLDLLQKFDFDGFDLDWEYPNDKVIFIEMLKELKNKLQPAGKIFTIAVG
ATAYRAHESYDIGNIIPQVDFINLMTYDLHGSWDHKTGINSPLYSNDQLSVNDCVKFWLS
QGCPKEKLILGISLYGRSFTLANQNNHGIGQSAWNGRGGKFVPGEAGFLPYNEICTNVKF
NGWTRVFDQSQKAPYSYKGDQWVGYDDLESINLKLDYIINNNLGGAMFWSIETDD
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g136.t2 | Gene3D | G3DSA:3.20.20.80 | Glycosidases | 25 | 355 | 4.6E-113 |
| 9 | g136.t2 | Gene3D | G3DSA:3.10.50.10 | - | 254 | 325 | 4.6E-113 |
| 2 | g136.t2 | PANTHER | PTHR11177 | CHITINASE | 14 | 355 | 8.2E-110 |
| 3 | g136.t2 | PANTHER | PTHR11177:SF360 | CHITINASE 12-RELATED | 14 | 355 | 8.2E-110 |
| 1 | g136.t2 | Pfam | PF00704 | Glycosyl hydrolases family 18 | 24 | 354 | 1.5E-85 |
| 11 | g136.t2 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 21 | - |
| 12 | g136.t2 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 3 | - |
| 13 | g136.t2 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 4 | 17 | - |
| 14 | g136.t2 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 18 | 21 | - |
| 10 | g136.t2 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 22 | 355 | - |
| 15 | g136.t2 | ProSitePatterns | PS01095 | Chitinases family 18 active site. | 141 | 149 | - |
| 16 | g136.t2 | SMART | SM00636 | 2g34 | 23 | 354 | 7.2E-129 |
| 5 | g136.t2 | SUPERFAMILY | SSF51445 | (Trans)glycosidases | 23 | 355 | 8.73E-88 |
| 4 | g136.t2 | SUPERFAMILY | SSF54556 | Chitinase insertion domain | 255 | 325 | 7.33E-19 |
| 7 | g136.t2 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 21 | - |
| 6 | g136.t2 | SignalP_GRAM_POSITIVE | SignalP-TM | SignalP-TM | 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:0004553 | hydrolase activity, hydrolyzing O-glycosyl compounds | MF |
| GO:0008061 | chitin binding | 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. There were no conditions that were differentially expressed