General information for g10493.t10
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative 1-4-alpha-glucan-branching enzyme.
Parent gene
- The parent gene g10493 is located on chr_1: 10197943..10199020 (+ 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 | g10493 | g10493.t10 | isoform | g10493.t10 | 10197943 | 10199020 |
| chr_1 | g10493 | g10493.t10 | exon | g10493.t10.exon1 | 10197943 | 10198400 |
| chr_1 | g10493 | g10493.t10 | cds | g10493.t10.CDS1 | 10198304 | 10198400 |
| chr_1 | g10493 | g10493.t10 | exon | g10493.t10.exon2 | 10198562 | 10198646 |
| chr_1 | g10493 | g10493.t10 | cds | g10493.t10.CDS2 | 10198562 | 10198646 |
| chr_1 | g10493 | g10493.t10 | exon | g10493.t10.exon3 | 10198717 | 10199020 |
| chr_1 | g10493 | g10493.t10 | cds | g10493.t10.CDS3 | 10198717 | 10199020 |
| chr_1 | g10493 | g10493.t10 | TTS | g10493.t10 | 10199160 | 10199160 |
| chr_1 | g10493 | g10493.t10 | TSS | g10493.t10 | NA | NA |
Sequences
>g10493.t10 Gene=g10493 Length=847
CGAGAAATACTTCGCAAGCACAAATAGCAATAAAATGTATAGTTTCTTTTAAACTTGATT
TCATAATCAAACGTGGAAGTTTTGAGTTTTGAAGAAAGTATGCTTGCCGAACACGCTTTA
GTGTGGAAGTCTTGCATTCACTTTTTAAGCTCTAACTAAACTATATTTTTGCAAAGTGCT
AGCAAAAGGAATTCAATTTCCTCGTTGGCATATAAAAATAGATTTTTGAATGAAACAAAA
TTTTTCTAAATTAAATTAATTTACTGAAAAATTCAAATCAAGAAAGAATTTTCACAATAA
AATTTTTTCTTCTATTAGGCTGATAACACACTCACTCGGTGGAGAAGCATATTTGAATTT
CATGGGCAACGAATTCGGACATCCGGAATGGCTTGACTTTCCGAGAGTTGGAAACAATCA
GTCCTATCATTATTGTAGACGACAATGGAATCTTGTTGATGATTCAAATCTCAAATATAA
ATATCTCAATGATTTCGATAGGGCGATGAATTTGACAGAGGAAAAATATGGTTGGCTTAA
TAGTAATCCAGGTTACGTGACATGGGCTCATGAGGGCGATAAGATTATCAGTTTCGAACG
CAATGGTCATTTGTTTGTGTTCAACTTTCATATGGACCGAGCATTCACAGATTATCGTAT
TGGTGTAGAACGACCAGGAAGCTATAAAATTGTACTAAGCTCGGACGATGTAGCTTTTGG
GGGATTTGGTCGTGTTGACTGTAGTTTAACACACGTATCAGTACCGGAGGGTCATGCAGG
TCGTAGTCAGTTTATTCACACATATTTACCACCACGTACGGGCTTTGTTTTTGTGAGAGT
TGGCTGA
>g10493.t10 Gene=g10493 Length=161
MGNEFGHPEWLDFPRVGNNQSYHYCRRQWNLVDDSNLKYKYLNDFDRAMNLTEEKYGWLN
SNPGYVTWAHEGDKIISFERNGHLFVFNFHMDRAFTDYRIGVERPGSYKIVLSSDDVAFG
GFGRVDCSLTHVSVPEGHAGRSQFIHTYLPPRTGFVFVRVG
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g10493.t10 | Gene3D | G3DSA:3.20.20.80 | Glycosidases | 1 | 60 | 0 |
| 4 | g10493.t10 | Gene3D | G3DSA:2.60.40.1180 | - | 61 | 161 | 0 |
| 2 | g10493.t10 | PANTHER | PTHR43651 | 1,4-ALPHA-GLUCAN-BRANCHING ENZYME | 1 | 158 | 0 |
| 1 | g10493.t10 | Pfam | PF02806 | Alpha amylase, C-terminal all-beta domain | 66 | 158 | 0 |
| 3 | g10493.t10 | SUPERFAMILY | SSF51011 | Glycosyl hydrolase domain | 62 | 159 | 0 |
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:0043169 | cation binding | MF |
| GO:0005978 | glycogen biosynthetic process | BP |
| GO:0005975 | carbohydrate metabolic process | BP |
| GO:0003844 | 1,4-alpha-glucan branching enzyme activity | MF |
| GO:0003824 | catalytic activity | MF |
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.
