General information for g10493.t9
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as 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.t9 | isoform | g10493.t9 | 10197682 | 10199020 |
| chr_1 | g10493 | g10493.t9 | exon | g10493.t9.exon1 | 10197682 | 10197928 |
| chr_1 | g10493 | g10493.t9 | cds | g10493.t9.CDS1 | 10197726 | 10197928 |
| chr_1 | g10493 | g10493.t9 | exon | g10493.t9.exon2 | 10198261 | 10198400 |
| chr_1 | g10493 | g10493.t9 | cds | g10493.t9.CDS2 | 10198261 | 10198400 |
| chr_1 | g10493 | g10493.t9 | exon | g10493.t9.exon3 | 10198562 | 10198648 |
| chr_1 | g10493 | g10493.t9 | cds | g10493.t9.CDS3 | 10198562 | 10198648 |
| chr_1 | g10493 | g10493.t9 | exon | g10493.t9.exon4 | 10198717 | 10199020 |
| chr_1 | g10493 | g10493.t9 | cds | g10493.t9.CDS4 | 10198717 | 10198733 |
| chr_1 | g10493 | g10493.t9 | TTS | g10493.t9 | 10199160 | 10199160 |
| chr_1 | g10493 | g10493.t9 | TSS | g10493.t9 | NA | NA |
Sequences
>g10493.t9 Gene=g10493 Length=778
AGTGGATTGAAATACTGAAAGAAAAGCGAGATGAAGATTGGAATATGGGCAATATTGTGC
ACACGTTGTCAAATCGACGATGGAAAGAGAAGACTGTTGCTTATGCTGAGTCACATGATC
AAGCATTAGTTGGCGACAAAACACTCGCTTTTTGGCTTATGGATAAAGAAATGTACACAA
GCATGTCAGTTCTTTCACCACCAAACCTCATTGTTGATCGTGGAATTGCTTTACACAAGA
TTATTAGGCTGATAACACACTCACTCGGTGGAGAAGCATATTTGAATTTCATGGGCAACG
AATTCGGACATCCGGAATGGCTTGACTTTCCGAGAGTTGGAAACAATCAGTCCTATCATT
ATTGTAGACGACAATGGAATCTTGTTGATGATTCAAATCTCAAATATAAATATCTCAATG
ATTTCGATAGGGCGATGAATTTGACAGAGGAAAAATATGGTTGGCTTAATAGGTTAATCC
AGGTTACGTGACATGGGCTCATGAGGGCGATAAGATTATCAGTTTCGAACGCAATGGTCA
TTTGTTTGTGTTCAACTTTCATATGGACCGAGCATTCACAGATTATCGTATTGGTGTAGA
ACGACCAGGAAGCTATAAAATTGTACTAAGCTCGGACGATGTAGCTTTTGGGGGATTTGG
TCGTGTTGACTGTAGTTTAACACACGTATCAGTACCGGAGGGTCATGCAGGTCGTAGTCA
GTTTATTCACACATATTTACCACCACGTACGGGCTTTGTTTTTGTGAGAGTTGGCTGA
>g10493.t9 Gene=g10493 Length=148
MGNIVHTLSNRRWKEKTVAYAESHDQALVGDKTLAFWLMDKEMYTSMSVLSPPNLIVDRG
IALHKIIRLITHSLGGEAYLNFMGNEFGHPEWLDFPRVGNNQSYHYCRRQWNLVDDSNLK
YKYLNDFDRAMNLTEEKYGWLNRLIQVT
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 4 | g10493.t9 | Gene3D | G3DSA:3.20.20.80 | Glycosidases | 1 | 142 | 0 |
| 1 | g10493.t9 | PANTHER | PTHR43651:SF2 | 1,4-ALPHA-GLUCAN-BRANCHING ENZYME, CHLOROPLASTIC/AMYLOPLASTIC | 1 | 144 | 0 |
| 2 | g10493.t9 | PANTHER | PTHR43651 | 1,4-ALPHA-GLUCAN-BRANCHING ENZYME | 1 | 144 | 0 |
| 3 | g10493.t9 | SUPERFAMILY | SSF51445 | (Trans)glycosidases | 2 | 131 | 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:0005978 | glycogen biosynthetic process | BP |
| GO:0003844 | 1,4-alpha-glucan branching enzyme 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.
