General information for g13641.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Chitinase domain-containing protein 1.
Parent gene
- The parent gene g13641 is located on chr_1: 31393550..31394440 (+ 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 | g13641 | g13641.t3 | TSS | g13641.t3 | 31393121 | 31393121 |
| chr_1 | g13641 | g13641.t3 | isoform | g13641.t3 | 31393550 | 31394440 |
| chr_1 | g13641 | g13641.t3 | exon | g13641.t3.exon1 | 31393550 | 31394440 |
| chr_1 | g13641 | g13641.t3 | cds | g13641.t3.CDS1 | 31393640 | 31394440 |
| chr_1 | g13641 | g13641.t3 | TTS | g13641.t3 | 31394523 | 31394523 |
Sequences
>g13641.t3 Gene=g13641 Length=891
GGATATGAGGTGGCAAAAACATTTGGTAAATTTAGTATTATTTCACCTGTTTGGCTACAA
ATTTTGAGAAAACAAGACTTAAAATATGAAATGGCCGGCACTCATGATTGTGATGAAAAT
TGGATGAGAGATGTAAGAAATGCTGGCAATAAAAAAATTATACCAAGAGTCCTTTTTGAT
CATTTTACTGATCGTGATTTTTCAAAGCTTTTAACATATCAAGAAGAAATTAATGTTGTG
AACAAATTGATTGTTGAAACATGTAAAAAGTACAATTTTGATGGTATTGTTCTTGAAGTG
TGGAGTCAACTAGCAAAAAGAGTTGATGATCAGCATTTGATTAATTTAGTTCGTAGCATA
GCTAGAGCGTTGCGACAAGCAGATTTAAAATTTATTTTAGTAATCCCACCATCACACCGT
GGTCCTGATCTTTTCAATTCACAGCATTTTGATTTGCTATGGGAAGATGTGGATTTTTTT
TCATTGATGACTTATGATTTTTCATCTTATGAGCGTCCAGGTGCAAATTCACCTCTTTAT
TGGATGAAAAATGTTGTTCTACACTTGTGCCCAACAGATATCAAAGAGAAAAGAGAGAAA
ATACTTTTAGGTCTCAATTTCTATGGCTATGACTTTACTCCTAATGGTGGTGAAGCTGTT
TTAGGAAGTGCATATCTTAATCTTTTAAAATATTATAAAGGAAGACTGAAATACGATGAA
AAAGATCAAGAGCATTATTTTGAAGTAAAAACTAACTCAGGGAAGCATTTCGTCTTTTAT
CCAACTCTCTATTCAATTCAACTTCGTATTGATTTAGCGAGAGAATTATCGACCGGTTTA
TCAATTTGGGAAATCGGACAAGGACTTGATTATTTTTATGATTTGCTTTAA
>g13641.t3 Gene=g13641 Length=266
MAGTHDCDENWMRDVRNAGNKKIIPRVLFDHFTDRDFSKLLTYQEEINVVNKLIVETCKK
YNFDGIVLEVWSQLAKRVDDQHLINLVRSIARALRQADLKFILVIPPSHRGPDLFNSQHF
DLLWEDVDFFSLMTYDFSSYERPGANSPLYWMKNVVLHLCPTDIKEKREKILLGLNFYGY
DFTPNGGEAVLGSAYLNLLKYYKGRLKYDEKDQEHYFEVKTNSGKHFVFYPTLYSIQLRI
DLARELSTGLSIWEIGQGLDYFYDLL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g13641.t3 | CDD | cd02876 | GH18_SI-CLP | 1 | 266 | 0.0e+00 |
| 6 | g13641.t3 | Gene3D | G3DSA:3.20.20.80 | Glycosidases | 2 | 264 | 0.0e+00 |
| 7 | g13641.t3 | Gene3D | G3DSA:3.10.50.10 | - | 179 | 230 | 0.0e+00 |
| 2 | g13641.t3 | PANTHER | PTHR46066 | CHITINASE DOMAIN-CONTAINING PROTEIN 1 FAMILY MEMBER | 2 | 266 | 0.0e+00 |
| 3 | g13641.t3 | PANTHER | PTHR46066:SF2 | CHITINASE DOMAIN-CONTAINING PROTEIN 1 | 2 | 266 | 0.0e+00 |
| 1 | g13641.t3 | Pfam | PF00704 | Glycosyl hydrolases family 18 | 13 | 257 | 0.0e+00 |
| 5 | g13641.t3 | SMART | SM00636 | 2g34 | 1 | 258 | 1.5e-05 |
| 4 | g13641.t3 | SUPERFAMILY | SSF51445 | (Trans)glycosidases | 15 | 264 | 0.0e+00 |
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: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.
