General information for g5665.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Maltase 1.
Parent gene
- The parent gene g5665 is located on chr_2: 11169111..11170974 (- 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 | g5665 | g5665.t1 | TTS | g5665.t1 | 11169053 | 11169053 |
| chr_2 | g5665 | g5665.t1 | isoform | g5665.t1 | 11169111 | 11170974 |
| chr_2 | g5665 | g5665.t1 | exon | g5665.t1.exon1 | 11169111 | 11169240 |
| chr_2 | g5665 | g5665.t1 | cds | g5665.t1.CDS1 | 11169111 | 11169240 |
| chr_2 | g5665 | g5665.t1 | exon | g5665.t1.exon2 | 11169297 | 11169889 |
| chr_2 | g5665 | g5665.t1 | cds | g5665.t1.CDS2 | 11169297 | 11169889 |
| chr_2 | g5665 | g5665.t1 | exon | g5665.t1.exon3 | 11169964 | 11170974 |
| chr_2 | g5665 | g5665.t1 | cds | g5665.t1.CDS3 | 11169964 | 11170974 |
| chr_2 | g5665 | g5665.t1 | TSS | g5665.t1 | 11171005 | 11171005 |
Sequences
>g5665.t1 Gene=g5665 Length=1734
ATGGAATTACTTAAAAGTCTCTTCATATTATTTACTTTTATCGCAATTGCAGTTCATTCG
CAGTTGACTGACGAAAGTTGGTGGAAGACAGCAAACATTTATCAAATTTCACCTTTGTCA
TTTAAAGATTCTGATGATGATGGAAAAGGTGATATCAAAGGCATCATATCAAAATTGGAT
TATTTCGTTGAGACAGGAATCAATGTTTTACTCATCACTCCATTTTTTGAAACAAATATG
GTAGATTTTGCCTATGATGTAACGAATTATGTCAAAGTTGATGAAACATTCGGAACCATG
AGTGATATTGAAGAATTATTTGCTAAGGCAAAAGAGAAGAATTTGAGAATTATTTTGGAT
TTCGTACCAAATCACACATCAAATCGACATGAATGGTTTTTGAATTCTGAAATCAGTGTT
TCTGAATATGAAAATTTTTATGTTTGGCATGATGGGATACCACAAAAAAATGATGGCCAA
CCACTACCACCAAATAATTGGACATCAGAATATGGAGGTTCGAGTTGGAAATGGAATGCA
ATGCGTGAAGCATATTATTATCATAAATTTGCTGAAGCACAACCTGATTTAAATTTGAGA
GAAGAGAAAGTAATTCAAAAATTAAATGAAGTTTTAAAATTCTGGATTGATAAAGGTGCC
GATGGATTTCGAATTAATGCAGTGAGCCAACTTTTTGAAGATGCCGCATTTCTCGAAAAG
TCTGATATTGAAATAAATCTGCCACAAACATATGAATTAATTGAGAGATGGCGAGCATTG
ATTGACGAGTACTCAAGTGGAAAAGTTTTAATTCCACAAGTGTGGAACTCCCCTATAGCT
GACTTAATGAGATACTATCAAAATGACGATGGATCGAAACAGCGTGCTCAAATTCCCATG
AACTTCATGCTGATCAATGAGCTTACAGCCACTTCGAATGCAAGTGAATTTAAGCGTGTA
ATTGAAAGTTATACAAGTGCATTACCAGAAGGTGCTATCGCGAACTGGCTTCTCGGTTCT
CATGATCATAATCGAGTAGCATCACGCATGGGAAAAGAAAAGATTGACGGATTAATGATT
CTTTTACAAACACTACCCGGCATTTCTTTTAATTTTTATGGAGATGAGATTGGAATGGAG
GATTATATGGATATATCGTGGGAAGATACTATGGATATTCAGGCGTGCAATGCCGATCAA
AATGATTTTAAAAGATTTTCGCGAGATGTAGCACGAACACCTTTTCAATGGGATAATTCT
ACAAATGCAGGATTTTCAAGTGGTAAACCTTGGTTGCCTGTTAATCCATCGTATATTGAG
AACAATCTTGATGCACAGATCAAGACCAATAGAAGTCATTATAAACTTTTTAAGGAATTA
CTTGTATTGCGGAAAAATGAAACATTTATTAAAGGGGATTTAAATATACAAGCATTGAAT
ACAAATGTTTTAGGTTATTCACGTTCATACAACGGCAATTCGTTTATTATTGCTATAAAT
TTAAATAATACACATGAGACAGTTGATGCAAGTGTGCTAAACGTCAAGTTCGGAGATGAA
TCAGAAATTTACTTAGCATCGAGTGATTCAAGCTATAATTCTGGTGACATCGTCAATGTA
AAAAATTTACACTTGATGCCTTATGACGCTGTGATTATTAAATATTCATCAGCTACGAAA
ATCACTTTATCCCTTCTTACTGCCATGATGATGATCGTAAAAATATTTTTATGA
>g5665.t1 Gene=g5665 Length=577
MELLKSLFILFTFIAIAVHSQLTDESWWKTANIYQISPLSFKDSDDDGKGDIKGIISKLD
YFVETGINVLLITPFFETNMVDFAYDVTNYVKVDETFGTMSDIEELFAKAKEKNLRIILD
FVPNHTSNRHEWFLNSEISVSEYENFYVWHDGIPQKNDGQPLPPNNWTSEYGGSSWKWNA
MREAYYYHKFAEAQPDLNLREEKVIQKLNEVLKFWIDKGADGFRINAVSQLFEDAAFLEK
SDIEINLPQTYELIERWRALIDEYSSGKVLIPQVWNSPIADLMRYYQNDDGSKQRAQIPM
NFMLINELTATSNASEFKRVIESYTSALPEGAIANWLLGSHDHNRVASRMGKEKIDGLMI
LLQTLPGISFNFYGDEIGMEDYMDISWEDTMDIQACNADQNDFKRFSRDVARTPFQWDNS
TNAGFSSGKPWLPVNPSYIENNLDAQIKTNRSHYKLFKELLVLRKNETFIKGDLNIQALN
TNVLGYSRSYNGNSFIIAINLNNTHETVDASVLNVKFGDESEIYLASSDSSYNSGDIVNV
KNLHLMPYDAVIIKYSSATKITLSLLTAMMMIVKIFL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g5665.t1 | Gene3D | G3DSA:3.20.20.80 | Glycosidases | 27 | 465 | 2.8E-141 |
| 10 | g5665.t1 | Gene3D | G3DSA:3.90.400.10 | - | 127 | 201 | 2.8E-141 |
| 8 | g5665.t1 | Gene3D | G3DSA:2.60.40.1180 | - | 475 | 555 | 4.3E-5 |
| 2 | g5665.t1 | PANTHER | PTHR10357 | ALPHA-AMYLASE FAMILY MEMBER | 17 | 562 | 5.3E-189 |
| 3 | g5665.t1 | PANTHER | PTHR10357:SF177 | FI17312P1-RELATED | 17 | 562 | 5.3E-189 |
| 1 | g5665.t1 | Pfam | PF00128 | Alpha amylase, catalytic domain | 50 | 382 | 6.0E-78 |
| 12 | g5665.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 20 | - |
| 13 | g5665.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 5 | - |
| 14 | g5665.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 6 | 16 | - |
| 15 | g5665.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 17 | 20 | - |
| 11 | g5665.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 21 | 577 | - |
| 6 | g5665.t1 | SMART | SM00642 | aamy | 35 | 412 | 7.3E-85 |
| 5 | g5665.t1 | SUPERFAMILY | SSF51445 | (Trans)glycosidases | 26 | 467 | 3.77E-109 |
| 4 | g5665.t1 | SUPERFAMILY | SSF51011 | Glycosyl hydrolase domain | 472 | 554 | 9.77E-6 |
| 7 | g5665.t1 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 20 | - |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5665/g5665.t1; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5665.t1.fa.iupred3.txt does not exist
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| 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