General information for g9055.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Alpha-amylase B.
Parent gene
- The parent gene g9055 is located on chr_2: 34916647..34918137 (+ 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 | g9055 | g9055.t1 | isoform | g9055.t1 | 34916647 | 34918137 |
| chr_2 | g9055 | g9055.t1 | exon | g9055.t1.exon1 | 34916647 | 34918137 |
| chr_2 | g9055 | g9055.t1 | cds | g9055.t1.CDS1 | 34916647 | 34918137 |
| chr_2 | g9055 | g9055.t1 | TSS | g9055.t1 | NA | NA |
| chr_2 | g9055 | g9055.t1 | TTS | g9055.t1 | NA | NA |
Sequences
>g9055.t1 Gene=g9055 Length=1491
ATGAAACAAATAATTTTAATTTTCATTTCTTTTCTAAATTTTTCACTTGCTCAATTTAAA
AATTCTCATATTTATCCCAATCGGACAGGAATTGTGCAACTTTTTGAGTGGAAATTTACA
GATATTGCACAAGAATGTAAATTTTTAGCAGAAGTTGGTTATGGAGCGGTTCAAATATCA
CCAGTGCATGAAAGTAAAGTTGATGATTCATACAGTTGGTATCTTCGTTATCAGCCAGTT
TCATATAAAATAATTTCACGTTCAGGTGACATTGAAGAATTCAAAGCAATGGTCAAAGAA
TGCAATGATCTTGAAATTCGTGTCTATGTCGATGTTGTTCTAAATCACATGGCGGGTGGT
GAAAATGAAGTTTATGGTAATGACAGAAGCACAGCTGAACCTTTGAAGCTCAATTATCCA
GCAGTTCCATACACAAATTCAGATTTTAATGAAAATTGTGCAATTATAAATTTCGGAAAT
GCTTTTGAAATTCGAAATTGTCGAGTTGATAAATTGCCAGATTTAAATCAAGCAAGTGAA
ATTGTTCGTGATAAAATTGTTGATTTTATGAATGAATTGATTGACTGTGGCATTGCTGGA
TTTCGAATTGATTCAGCTAAAAATATTTGGCCAAATGATCTTTCAGTAATTTATGGCCGT
CTTAAAGATCTCAATGAAAATTTCGATTTTCTTCCTAAATCAAAGCCATTTATTTATCAA
GAAATAGTTGATCTTGGCGGTGAAGCAGTTTCAAAGACAGAATATACTGGTATTGGTGCA
ATCACAGAATATTTGCACTCAAAAGAACTCGGACTTATTTTTCAAGGTAAAAAACCAATG
CATGATCTACTTAAATGGGGTCCAGAGCGGGGTTTTGTTCCATCAAAAGATGCTGTGGTT
TTCATTGATAATCATGACAATCAAAGATTATTTTTGCGTGGTTTTACCGAAATTTTAAAT
TATAAAGATGAAAAACGTTACATTTTAGCAAATATTTTTATGCTTGCAAATCCTTTTGGT
TTGGTAAAAATCATGAGCAGTTTTGAATTTACTGATGCTTATGATGGACCACCGCAAGAA
GAAAACCATAAAATTACTGAGCCAAAAATTAATGCAAATTTACAATGCGAAAGACCTTGG
GTTTGTGAACATCGTTGGCTGCCAATTATTGAAATGATAAAATTTAGAAATGTCGTTGGA
AATTCATCAATTACAAATTGGGCTGATAATGGACAAAATCAAGTTGCATTTTGTCGTGGC
AATTTAGGATTTGTAGCATTCAATAATGAACTGTCATTGAATATGAAAACAACACAAAAA
ACTTGTCTTAGATCTGGAAAATATTGCGATGTTTTGAGTGGTGGGAAAGTTGACAACACT
TGCGTCGGTGAAGAAATTTTAGTTGAGGAAGATGGAAAAGCTGAAATTGTGATTTCATGG
GAAAAAGATATTCCTGCAATTGCAATTCATGTTGGATCGAAAATTGAATAA
>g9055.t1 Gene=g9055 Length=496
MKQIILIFISFLNFSLAQFKNSHIYPNRTGIVQLFEWKFTDIAQECKFLAEVGYGAVQIS
PVHESKVDDSYSWYLRYQPVSYKIISRSGDIEEFKAMVKECNDLEIRVYVDVVLNHMAGG
ENEVYGNDRSTAEPLKLNYPAVPYTNSDFNENCAIINFGNAFEIRNCRVDKLPDLNQASE
IVRDKIVDFMNELIDCGIAGFRIDSAKNIWPNDLSVIYGRLKDLNENFDFLPKSKPFIYQ
EIVDLGGEAVSKTEYTGIGAITEYLHSKELGLIFQGKKPMHDLLKWGPERGFVPSKDAVV
FIDNHDNQRLFLRGFTEILNYKDEKRYILANIFMLANPFGLVKIMSSFEFTDAYDGPPQE
ENHKITEPKINANLQCERPWVCEHRWLPIIEMIKFRNVVGNSSITNWADNGQNQVAFCRG
NLGFVAFNNELSLNMKTTQKTCLRSGKYCDVLSGGKVDNTCVGEEILVEEDGKAEIVISW
EKDIPAIAIHVGSKIE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 20 | g9055.t1 | CDD | cd11317 | AmyAc_bac_euk_AmyA | 28 | 399 | 1.95646E-157 |
| 14 | g9055.t1 | Gene3D | G3DSA:3.20.20.80 | Glycosidases | 19 | 400 | 1.9E-146 |
| 13 | g9055.t1 | Gene3D | G3DSA:2.60.40.1180 | - | 402 | 496 | 8.1E-32 |
| 3 | g9055.t1 | PANTHER | PTHR43447 | ALPHA-AMYLASE | 17 | 494 | 4.0E-124 |
| 4 | g9055.t1 | PANTHER | PTHR43447:SF7 | ALPHA-AMYLASE | 17 | 494 | 4.0E-124 |
| 6 | g9055.t1 | PRINTS | PR00110 | Alpha-amylase signature | 73 | 90 | 4.4E-29 |
| 9 | g9055.t1 | PRINTS | PR00110 | Alpha-amylase signature | 105 | 116 | 4.4E-29 |
| 7 | g9055.t1 | PRINTS | PR00110 | Alpha-amylase signature | 198 | 209 | 4.4E-29 |
| 8 | g9055.t1 | PRINTS | PR00110 | Alpha-amylase signature | 237 | 255 | 4.4E-29 |
| 5 | g9055.t1 | PRINTS | PR00110 | Alpha-amylase signature | 296 | 308 | 4.4E-29 |
| 2 | g9055.t1 | Pfam | PF00128 | Alpha amylase, catalytic domain | 42 | 335 | 3.3E-20 |
| 1 | g9055.t1 | Pfam | PF02806 | Alpha amylase, C-terminal all-beta domain | 407 | 478 | 6.5E-9 |
| 16 | g9055.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 17 | - |
| 17 | g9055.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 3 | - |
| 18 | g9055.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 4 | 12 | - |
| 19 | g9055.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 13 | 17 | - |
| 15 | g9055.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 18 | 496 | - |
| 21 | g9055.t1 | SMART | SM00642 | aamy | 29 | 396 | 5.8E-61 |
| 22 | g9055.t1 | SMART | SM00632 | Aamy_c | 405 | 494 | 1.4E-31 |
| 11 | g9055.t1 | SUPERFAMILY | SSF51445 | (Trans)glycosidases | 22 | 397 | 1.75E-88 |
| 10 | g9055.t1 | SUPERFAMILY | SSF51011 | Glycosyl hydrolase domain | 403 | 494 | 2.73E-28 |
| 12 | g9055.t1 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 17 | - |
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:0004556 | alpha-amylase activity | MF |
| GO:0005975 | carbohydrate metabolic process | BP |
| GO:0003824 | catalytic activity | MF |
KEGG
Orthology
- This transcript has been annotated with K01176 (alpha-amylase)
Pathway
- This transcript belongs to the following pathways
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