General information for g7793.t9
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Alpha-amylase B.
Parent gene
- The parent gene g7793 is located on chr_2: 26140939..26141476 (+ 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_2 | g7793 | g7793.t9 | isoform | g7793.t9 | 26140633 | 26141476 |
| chr_2 | g7793 | g7793.t9 | exon | g7793.t9.exon1 | 26140633 | 26140680 |
| chr_2 | g7793 | g7793.t9 | exon | g7793.t9.exon2 | 26140742 | 26140850 |
| chr_2 | g7793 | g7793.t9 | cds | g7793.t9.CDS1 | 26140746 | 26140850 |
| chr_2 | g7793 | g7793.t9 | exon | g7793.t9.exon3 | 26140907 | 26141476 |
| chr_2 | g7793 | g7793.t9 | cds | g7793.t9.CDS2 | 26140907 | 26141476 |
| chr_2 | g7793 | g7793.t9 | TTS | g7793.t9 | 26141539 | 26141539 |
| chr_2 | g7793 | g7793.t9 | TSS | g7793.t9 | NA | NA |
Sequences
>g7793.t9 Gene=g7793 Length=727
GGATCATTATACACATTTGGGTGCTGTCACTGTTTTTGAAGCAAGCAGAATTATGGGACA
AGTTTTGCGTGGACATGCTGACATCAATGATTTAAGATATTTCAGTTCACGTTTTGGAAT
TGAATCTAAAGAAGCTTTAATTTTTGTTGATAACCATGACAATCAACGTGATGGTGGACT
TCCATTAACAAACCATAGAGAACCAAGAATTTACAAAATAGCAACTGCATACAATTTAGC
TCAAGATTTCGGTCATCAAAGAATTATGAGTTCATTCTATTTTTCACATAGAGATCAAGG
ACCTCCACAGGATGCATCACAAAATATTCTCTCACCAACATTCGATGCTAATGGACAATG
CACAAATGGTTGGGTTTGTGAGCATCGATGGCCTGCAATTAGAAATATGGTACAATTTAG
TGCAGCAGTAAAGGGAACAAAAGCAGAAAACTGGTGGACAGGATGGAATGAAATTGCATT
TTCACGCGGCAATCGAGGATTTATTGCAATAAATGCAAAAGATAATGGTGATTCTACCAA
TGTACGGTTATACACTTCACTACCAGCCGGTATTTACTGCGATATGTCGAGTGGAAATAA
AGTTGGCAACAGCTGCACAAGAAAAACTGTTACAGTAGGTTCTGATGGCTATGCTGATAT
TTATATTCCAGGCGCATATAGTAACGAGGAAGGATTCATCGCAATTCATGTCGATGCGAA
ACTGTAA
>g7793.t9 Gene=g7793 Length=224
MGQVLRGHADINDLRYFSSRFGIESKEALIFVDNHDNQRDGGLPLTNHREPRIYKIATAY
NLAQDFGHQRIMSSFYFSHRDQGPPQDASQNILSPTFDANGQCTNGWVCEHRWPAIRNMV
QFSAAVKGTKAENWWTGWNEIAFSRGNRGFIAINAKDNGDSTNVRLYTSLPAGIYCDMSS
GNKVGNSCTRKTVTVGSDGYADIYIPGAYSNEEGFIAIHVDAKL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g7793.t9 | Gene3D | G3DSA:3.20.20.80 | Glycosidases | 1 | 128 | 0 |
| 7 | g7793.t9 | Gene3D | G3DSA:2.60.40.1180 | - | 130 | 224 | 0 |
| 2 | g7793.t9 | PANTHER | PTHR43447 | ALPHA-AMYLASE | 22 | 224 | 0 |
| 3 | g7793.t9 | PANTHER | PTHR43447:SF7 | ALPHA-AMYLASE | 22 | 224 | 0 |
| 1 | g7793.t9 | Pfam | PF02806 | Alpha amylase, C-terminal all-beta domain | 140 | 207 | 0 |
| 6 | g7793.t9 | SMART | SM00632 | Aamy_c | 132 | 223 | 0 |
| 5 | g7793.t9 | SUPERFAMILY | SSF51445 | (Trans)glycosidases | 23 | 125 | 0 |
| 4 | g7793.t9 | SUPERFAMILY | SSF51011 | Glycosyl hydrolase domain | 128 | 224 | 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:0005975 | carbohydrate metabolic process | BP |
| 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. There were no conditions that were differentially expressed