General information for g14591.t5
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Alpha-amylase A.
Parent gene
- The parent gene g14591 is located on chr_4: 1429126..1431522 (+ 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_4 | g14591 | g14591.t5 | TSS | g14591.t5 | 1429090 | 1429090 |
| chr_4 | g14591 | g14591.t5 | isoform | g14591.t5 | 1429126 | 1431522 |
| chr_4 | g14591 | g14591.t5 | exon | g14591.t5.exon1 | 1429126 | 1429631 |
| chr_4 | g14591 | g14591.t5 | cds | g14591.t5.CDS1 | 1429469 | 1429631 |
| chr_4 | g14591 | g14591.t5 | exon | g14591.t5.exon2 | 1429734 | 1429882 |
| chr_4 | g14591 | g14591.t5 | cds | g14591.t5.CDS2 | 1429734 | 1429882 |
| chr_4 | g14591 | g14591.t5 | exon | g14591.t5.exon3 | 1430179 | 1430414 |
| chr_4 | g14591 | g14591.t5 | cds | g14591.t5.CDS3 | 1430179 | 1430414 |
| chr_4 | g14591 | g14591.t5 | exon | g14591.t5.exon4 | 1430474 | 1430542 |
| chr_4 | g14591 | g14591.t5 | cds | g14591.t5.CDS4 | 1430474 | 1430542 |
| chr_4 | g14591 | g14591.t5 | exon | g14591.t5.exon5 | 1430603 | 1430676 |
| chr_4 | g14591 | g14591.t5 | cds | g14591.t5.CDS5 | 1430603 | 1430676 |
| chr_4 | g14591 | g14591.t5 | exon | g14591.t5.exon6 | 1431029 | 1431522 |
| chr_4 | g14591 | g14591.t5 | cds | g14591.t5.CDS6 | 1431029 | 1431522 |
| chr_4 | g14591 | g14591.t5 | TTS | g14591.t5 | 1431566 | 1431566 |
Sequences
>g14591.t5 Gene=g14591 Length=1528
ATGAAAATTTTCCTAGCACTTCTAAGTGCATTAGTAATTGTTAGTGCACAAAGAAATCCA
CATTGGTGGAGTGGTAGAAGTGCTTTTGTTCATCTTTTTGAATGGAAATGGAACGACATT
GCGAATGAGTGTGAAAATTTTCTTGCACCACGTGGATATGCCGGAGTTCAAATTTCTCCA
CCAAATGAAAATCTCGTAATTTCAAATCGACCATGGTGGGAGAGGTAAAATTATATAATT
GGCTGAAATCATGAAATAAAAATGAAATTATTTATTATTTAGATATCAACCTGTCAGCTA
TATTTTGACAACAAGATCAGGTTCAAGAGCAGAGTTGGCAAATATGATTTCACGTTGTAA
TGCTGTTGGTATTAGAATTATTGCTGATGTTGTTATCAACCATATGGGAGCTGCAAATGG
AATCGGAACAGGTGGATCAACAAGTGATTACAATAATTTAAATTTCCCAGCAGTTCCTTA
TAGCAATAATGATTTTAATCCCAATTGCGCTATTAATAACTACAATGATCCTTATCAAGT
AAGAAATTGCCGTCTTGTTGGTCTCCCTGATTTGAAACTTGATTCAGCTTGGGTTCGTGA
TAAAATTGTTAATTACATGAATGATTTGATTAGTCTTGGTGTCGCTGGATTTAGAGTCAA
ACATATGTGGCCTGCAGATTTGCAACATATTTTCAACCGATTAAACAACCTCAACACAGC
TCATGGTTTTCCTGCCAATTCACGTCCATTCATCACGCAAGAAGTTATTGATTTGGGTGG
TGAAGCCATTTCTAAAAATGAATACACTCATCTTGGAACTGTAACTGAATTTAGATACTC
AGCTGAAATTGGTCGTGTTTTTAATGGTAGAGATTTATTGAAATATCTTTATAATTTCGG
AACAGCTTGGGGTTTCTTGCAAAGTGATTATGCTTTGACTTTTGTTGACAACCACGATAA
CCAACGTGGTCATGGTGCCGGAGGTGACAATGTTTTAACATATAAGAATGCAAAAAGGTA
CAAGATGGCAACTGCGTTCCACCTTGCTTGGCCATTCGGTATTCCACGTGTCATGAGCAG
TTTTGCTTTTAACGATGGCGATCAAGGTCCACCAGCTGATGGAAATGGAAATCTTATATC
ACCTGGATTTAATGCTGATGGCTCATGCACTAATGGTTGGGTTTGTGAACACCGATGGCG
TCAAATTTATAACATGATTGGATTCAGAAATGTCGCTGGTACAGCAGCTGTTGCAAATTG
GTGGGAAAATGGCAGTGGTCAACAAATCGCATTTTCACGTGGAAATCGTGCTTTCATCGC
CTTTAATCAAGATTCAAGTGCTTTGAATTCTAACATTTATACTGGTCTTGCTGCTGGAAC
TTATTGTGACATTGCATCAGGAGCTAAAAGTGGATCATCATGCACAGGAAAATCAATTGT
TGTAGGAAGCAATGGCTATGCCCAAATTAACTTAGGAGCAGGTGAAACAGAAGGCTATGT
CGCTATTCATGTTGATGCAAAATTGTAA
>g14591.t5 Gene=g14591 Length=394
MISRCNAVGIRIIADVVINHMGAANGIGTGGSTSDYNNLNFPAVPYSNNDFNPNCAINNY
NDPYQVRNCRLVGLPDLKLDSAWVRDKIVNYMNDLISLGVAGFRVKHMWPADLQHIFNRL
NNLNTAHGFPANSRPFITQEVIDLGGEAISKNEYTHLGTVTEFRYSAEIGRVFNGRDLLK
YLYNFGTAWGFLQSDYALTFVDNHDNQRGHGAGGDNVLTYKNAKRYKMATAFHLAWPFGI
PRVMSSFAFNDGDQGPPADGNGNLISPGFNADGSCTNGWVCEHRWRQIYNMIGFRNVAGT
AAVANWWENGSGQQIAFSRGNRAFIAFNQDSSALNSNIYTGLAAGTYCDIASGAKSGSSC
TGKSIVVGSNGYAQINLGAGETEGYVAIHVDAKL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 13 | g14591.t5 | CDD | cd11317 | AmyAc_bac_euk_AmyA | 1 | 298 | 4.37602E-147 |
| 12 | g14591.t5 | Gene3D | G3DSA:3.20.20.80 | Glycosidases | 1 | 299 | 5.1E-130 |
| 11 | g14591.t5 | Gene3D | G3DSA:2.60.40.1180 | - | 301 | 394 | 5.0E-33 |
| 3 | g14591.t5 | PANTHER | PTHR43447 | ALPHA-AMYLASE | 1 | 394 | 2.8E-130 |
| 4 | g14591.t5 | PANTHER | PTHR43447:SF7 | ALPHA-AMYLASE | 1 | 394 | 2.8E-130 |
| 7 | g14591.t5 | PRINTS | PR00110 | Alpha-amylase signature | 9 | 20 | 1.2E-17 |
| 6 | g14591.t5 | PRINTS | PR00110 | Alpha-amylase signature | 136 | 154 | 1.2E-17 |
| 5 | g14591.t5 | PRINTS | PR00110 | Alpha-amylase signature | 195 | 207 | 1.2E-17 |
| 2 | g14591.t5 | Pfam | PF00128 | Alpha amylase, catalytic domain | 1 | 237 | 4.3E-11 |
| 1 | g14591.t5 | Pfam | PF02806 | Alpha amylase, C-terminal all-beta domain | 309 | 379 | 1.5E-11 |
| 14 | g14591.t5 | SMART | SM00642 | aamy | 1 | 295 | 4.2E-35 |
| 15 | g14591.t5 | SMART | SM00632 | Aamy_c | 304 | 393 | 2.3E-39 |
| 9 | g14591.t5 | SUPERFAMILY | SSF51445 | (Trans)glycosidases | 1 | 296 | 1.49E-76 |
| 8 | g14591.t5 | SUPERFAMILY | SSF51011 | Glycosyl hydrolase domain | 303 | 394 | 9.6E-30 |
| 10 | g14591.t5 | SignalP_GRAM_POSITIVE | SignalP-TM | SignalP-TM | 1 | 23 | - |
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 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