General information for g14591.t1
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.t1 | TSS | g14591.t1 | 1429090 | 1429090 |
| chr_4 | g14591 | g14591.t1 | isoform | g14591.t1 | 1429126 | 1431522 |
| chr_4 | g14591 | g14591.t1 | exon | g14591.t1.exon1 | 1429126 | 1429349 |
| chr_4 | g14591 | g14591.t1 | cds | g14591.t1.CDS1 | 1429126 | 1429349 |
| chr_4 | g14591 | g14591.t1 | exon | g14591.t1.exon2 | 1429408 | 1429631 |
| chr_4 | g14591 | g14591.t1 | cds | g14591.t1.CDS2 | 1429408 | 1429631 |
| chr_4 | g14591 | g14591.t1 | exon | g14591.t1.exon3 | 1429734 | 1429882 |
| chr_4 | g14591 | g14591.t1 | cds | g14591.t1.CDS3 | 1429734 | 1429882 |
| chr_4 | g14591 | g14591.t1 | exon | g14591.t1.exon4 | 1429947 | 1429955 |
| chr_4 | g14591 | g14591.t1 | cds | g14591.t1.CDS4 | 1429947 | 1429955 |
| chr_4 | g14591 | g14591.t1 | exon | g14591.t1.exon5 | 1430179 | 1430414 |
| chr_4 | g14591 | g14591.t1 | cds | g14591.t1.CDS5 | 1430179 | 1430414 |
| chr_4 | g14591 | g14591.t1 | exon | g14591.t1.exon6 | 1430474 | 1430542 |
| chr_4 | g14591 | g14591.t1 | cds | g14591.t1.CDS6 | 1430474 | 1430542 |
| chr_4 | g14591 | g14591.t1 | exon | g14591.t1.exon7 | 1430603 | 1430676 |
| chr_4 | g14591 | g14591.t1 | cds | g14591.t1.CDS7 | 1430603 | 1430676 |
| chr_4 | g14591 | g14591.t1 | exon | g14591.t1.exon8 | 1431029 | 1431522 |
| chr_4 | g14591 | g14591.t1 | cds | g14591.t1.CDS8 | 1431029 | 1431522 |
| chr_4 | g14591 | g14591.t1 | TTS | g14591.t1 | 1431566 | 1431566 |
Sequences
>g14591.t1 Gene=g14591 Length=1479
ATGAAAATTTTCCTAGCACTTCTAAGTGCATTAGTAATTGTTAGTGCACAAAGAAATCCA
CATTGGTGGAGTGGTAGAAGTGCTTTTGTTCATCTTTTTGAATGGAAATGGAACGACATT
GCGAATGAGTGTGAAAATTTTCTTGCACCACGTGGATATGCCGGAGTTCAAATTTCTCCA
CCAAATGAAAATCTCGTAATTTCAAATCGACCATGGTGGGAGAGATATCAACCTGTCAGC
TATATTTTGACAACAAGATCAGGTTCAAGAGCAGAGTTGGCAAATATGATTTCACGTTGT
AATGCTGTTGGTATTAGAATTATTGCTGATGTTGTTATCAACCATATGGGAGCTGCAAAT
GGAATCGGAACAGGTGGATCAACAAGTGATTACAATAATTTAAATTTCCCAGCAGTTCCT
TATAGCAATAATGATTTTAATCCCAATTGCGCTATTAATAACTACAATGATCCTTATCAA
GTAAGAAATTGCCGTCTTGTTGGTCTCCCTGATTTGAAACTTGATTCAGCTTGGGTTCGT
GATAAAATTGTTAATTACATGAATGATTTGATTAGTCTTGGTGTCGCTGGATTTAGAGTT
GATGCAGTCAAACATATGTGGCCTGCAGATTTGCAACATATTTTCAACCGATTAAACAAC
CTCAACACAGCTCATGGTTTTCCTGCCAATTCACGTCCATTCATCACGCAAGAAGTTATT
GATTTGGGTGGTGAAGCCATTTCTAAAAATGAATACACTCATCTTGGAACTGTAACTGAA
TTTAGATACTCAGCTGAAATTGGTCGTGTTTTTAATGGTAGAGATTTATTGAAATATCTT
TATAATTTCGGAACAGCTTGGGGTTTCTTGCAAAGTGATTATGCTTTGACTTTTGTTGAC
AACCACGATAACCAACGTGGTCATGGTGCCGGAGGTGACAATGTTTTAACATATAAGAAT
GCAAAAAGGTACAAGATGGCAACTGCGTTCCACCTTGCTTGGCCATTCGGTATTCCACGT
GTCATGAGCAGTTTTGCTTTTAACGATGGCGATCAAGGTCCACCAGCTGATGGAAATGGA
AATCTTATATCACCTGGATTTAATGCTGATGGCTCATGCACTAATGGTTGGGTTTGTGAA
CACCGATGGCGTCAAATTTATAACATGATTGGATTCAGAAATGTCGCTGGTACAGCAGCT
GTTGCAAATTGGTGGGAAAATGGCAGTGGTCAACAAATCGCATTTTCACGTGGAAATCGT
GCTTTCATCGCCTTTAATCAAGATTCAAGTGCTTTGAATTCTAACATTTATACTGGTCTT
GCTGCTGGAACTTATTGTGACATTGCATCAGGAGCTAAAAGTGGATCATCATGCACAGGA
AAATCAATTGTTGTAGGAAGCAATGGCTATGCCCAAATTAACTTAGGAGCAGGTGAAACA
GAAGGCTATGTCGCTATTCATGTTGATGCAAAATTGTAA
>g14591.t1 Gene=g14591 Length=492
MKIFLALLSALVIVSAQRNPHWWSGRSAFVHLFEWKWNDIANECENFLAPRGYAGVQISP
PNENLVISNRPWWERYQPVSYILTTRSGSRAELANMISRCNAVGIRIIADVVINHMGAAN
GIGTGGSTSDYNNLNFPAVPYSNNDFNPNCAINNYNDPYQVRNCRLVGLPDLKLDSAWVR
DKIVNYMNDLISLGVAGFRVDAVKHMWPADLQHIFNRLNNLNTAHGFPANSRPFITQEVI
DLGGEAISKNEYTHLGTVTEFRYSAEIGRVFNGRDLLKYLYNFGTAWGFLQSDYALTFVD
NHDNQRGHGAGGDNVLTYKNAKRYKMATAFHLAWPFGIPRVMSSFAFNDGDQGPPADGNG
NLISPGFNADGSCTNGWVCEHRWRQIYNMIGFRNVAGTAAVANWWENGSGQQIAFSRGNR
AFIAFNQDSSALNSNIYTGLAAGTYCDIASGAKSGSSCTGKSIVVGSNGYAQINLGAGET
EGYVAIHVDAKL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 21 | g14591.t1 | CDD | cd11317 | AmyAc_bac_euk_AmyA | 26 | 396 | 0.0 |
| 15 | g14591.t1 | Gene3D | G3DSA:3.20.20.80 | Glycosidases | 17 | 397 | 4.5E-178 |
| 14 | g14591.t1 | Gene3D | G3DSA:2.60.40.1180 | - | 399 | 492 | 7.3E-33 |
| 3 | g14591.t1 | PANTHER | PTHR43447 | ALPHA-AMYLASE | 15 | 492 | 3.7E-170 |
| 4 | g14591.t1 | PANTHER | PTHR43447:SF7 | ALPHA-AMYLASE | 15 | 492 | 3.7E-170 |
| 7 | g14591.t1 | PRINTS | PR00110 | Alpha-amylase signature | 72 | 89 | 3.1E-33 |
| 6 | g14591.t1 | PRINTS | PR00110 | Alpha-amylase signature | 104 | 115 | 3.1E-33 |
| 9 | g14591.t1 | PRINTS | PR00110 | Alpha-amylase signature | 195 | 206 | 3.1E-33 |
| 5 | g14591.t1 | PRINTS | PR00110 | Alpha-amylase signature | 234 | 252 | 3.1E-33 |
| 8 | g14591.t1 | PRINTS | PR00110 | Alpha-amylase signature | 293 | 305 | 3.1E-33 |
| 2 | g14591.t1 | Pfam | PF00128 | Alpha amylase, catalytic domain | 88 | 335 | 1.4E-17 |
| 1 | g14591.t1 | Pfam | PF02806 | Alpha amylase, C-terminal all-beta domain | 407 | 477 | 2.1E-11 |
| 17 | g14591.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 18 | - |
| 18 | g14591.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 2 | - |
| 19 | g14591.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 3 | 14 | - |
| 20 | g14591.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 15 | 18 | - |
| 16 | g14591.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 19 | 492 | - |
| 22 | g14591.t1 | SMART | SM00642 | aamy | 27 | 393 | 6.3E-104 |
| 23 | g14591.t1 | SMART | SM00632 | Aamy_c | 402 | 491 | 2.3E-39 |
| 11 | g14591.t1 | SUPERFAMILY | SSF51445 | (Trans)glycosidases | 19 | 394 | 6.53E-108 |
| 10 | g14591.t1 | SUPERFAMILY | SSF51011 | Glycosyl hydrolase domain | 401 | 492 | 1.44E-29 |
| 13 | g14591.t1 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 16 | - |
| 12 | g14591.t1 | SignalP_GRAM_POSITIVE | SignalP-TM | SignalP-TM | 1 | 16 | - |
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.
