General information for g5991.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Maltase 2.
Parent gene
- The parent gene g5991 is located on chr_2: 13214225..13215116 (+ 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 | g5991 | g5991.t1 | TSS | g5991.t1 | 13210710 | 13210710 |
| chr_2 | g5991 | g5991.t1 | isoform | g5991.t1 | 13211513 | 13215116 |
| chr_2 | g5991 | g5991.t1 | exon | g5991.t1.exon1 | 13211513 | 13211605 |
| chr_2 | g5991 | g5991.t1 | cds | g5991.t1.CDS1 | 13211513 | 13211605 |
| chr_2 | g5991 | g5991.t1 | exon | g5991.t1.exon2 | 13211665 | 13211812 |
| chr_2 | g5991 | g5991.t1 | cds | g5991.t1.CDS2 | 13211665 | 13211812 |
| chr_2 | g5991 | g5991.t1 | exon | g5991.t1.exon3 | 13211876 | 13211971 |
| chr_2 | g5991 | g5991.t1 | cds | g5991.t1.CDS3 | 13211876 | 13211971 |
| chr_2 | g5991 | g5991.t1 | exon | g5991.t1.exon4 | 13212047 | 13212251 |
| chr_2 | g5991 | g5991.t1 | cds | g5991.t1.CDS4 | 13212047 | 13212251 |
| chr_2 | g5991 | g5991.t1 | exon | g5991.t1.exon5 | 13212334 | 13212469 |
| chr_2 | g5991 | g5991.t1 | cds | g5991.t1.CDS5 | 13212334 | 13212469 |
| chr_2 | g5991 | g5991.t1 | exon | g5991.t1.exon6 | 13212538 | 13212645 |
| chr_2 | g5991 | g5991.t1 | cds | g5991.t1.CDS6 | 13212538 | 13212645 |
| chr_2 | g5991 | g5991.t1 | exon | g5991.t1.exon7 | 13212893 | 13213174 |
| chr_2 | g5991 | g5991.t1 | cds | g5991.t1.CDS7 | 13212893 | 13213174 |
| chr_2 | g5991 | g5991.t1 | exon | g5991.t1.exon8 | 13213273 | 13213380 |
| chr_2 | g5991 | g5991.t1 | cds | g5991.t1.CDS8 | 13213273 | 13213380 |
| chr_2 | g5991 | g5991.t1 | exon | g5991.t1.exon9 | 13213499 | 13213533 |
| chr_2 | g5991 | g5991.t1 | cds | g5991.t1.CDS9 | 13213499 | 13213533 |
| chr_2 | g5991 | g5991.t1 | exon | g5991.t1.exon10 | 13213687 | 13213780 |
| chr_2 | g5991 | g5991.t1 | cds | g5991.t1.CDS10 | 13213687 | 13213780 |
| chr_2 | g5991 | g5991.t1 | exon | g5991.t1.exon11 | 13213855 | 13214213 |
| chr_2 | g5991 | g5991.t1 | cds | g5991.t1.CDS11 | 13213855 | 13214213 |
| chr_2 | g5991 | g5991.t1 | exon | g5991.t1.exon12 | 13214889 | 13214969 |
| chr_2 | g5991 | g5991.t1 | cds | g5991.t1.CDS12 | 13214889 | 13214969 |
| chr_2 | g5991 | g5991.t1 | exon | g5991.t1.exon13 | 13215077 | 13215116 |
| chr_2 | g5991 | g5991.t1 | cds | g5991.t1.CDS13 | 13215077 | 13215116 |
| chr_2 | g5991 | g5991.t1 | TTS | g5991.t1 | 13215273 | 13215273 |
Sequences
>g5991.t1 Gene=g5991 Length=1785
ATGCGAATTTTATTATTAGCTGTGATTTTAAATTGGAATCTACTGTCAATATGTGGCGAT
GAAGAAAATAAAGACTGGTGGCAAACGACTGTCTTTTATCAAATTTATCCAAGAAGTTTT
CAAGATAGTAATGGTGATGGAATTGGTGATTTAAAAGGAATCACTTCAAGATTAGATCAT
TTAAAAGAAGCAGGTGTTGGTGCCACATGGCTAAGTCCAATTTTTAAATCTCCAATGGTT
GACTTTGGCTATGACATCTCAGACTATTTGAGCATTCAAGAAGAATATGGGACAATGGAG
GATTTTGATGAGTTGATTGCAAAAGCAAAAGAATTAGGTATAAAAATAATTCTCGATTTT
GTGCCCAATCATTCTTCGGATAAGCACGAATGGTTCATCAAGTCAGAAGCGAAAGATCCC
GAATATATTGACTTTTATATATGGCACGATGGAAAGCCTAATCCTGATGGTGGTCGAAAT
CTTGAGCCAAATAATTGGGTTTCCGTTTTTTATGGCTCAGCATGGACTTGGAGTGATAAA
CGACAGCAATATTATTTGCATCAATTTACCAAACAGCAGCCAGATTTAAATTACCGCAAT
CCAAAAGTTGTCGAGCGTATGAGTGACGTTTTGCGTTTTTGGCTAAAAAAAGGCGTTTAT
GGATTCCGCGTTGATGCTATTAATCACTTATTCGAAGTTGAGGATTTCATTGATGAGCCA
GTGAATGCATTTGATCCTGATCCAAAATCTTATGGACACTTGTTTCATTATTATACCGTA
GATTTGAATGAAGTATATGATGTCGTCTATCAATGGCGAGATCTCCTCGACGACTTTAAA
AAGACGCACGGAGGCGAAACAAGAATAATGATGACAGAGGCTTATGCAAATATGAGTTTC
GTCATGAGATATTATGAAAATGATGAGGGCACTCGAAAAGGCTCTCATATACCATTCAAC
TTTCTTATGATTTCTGATCTCAATGGCGACTCAACAGCACGAGATTTTGCACACACAATC
AGCAAGTGGATGAATTATATGCCGGTTGGATTTACCGCTAATTGGGTTATGGGCAATCAC
GACAATTCACGTGTAGCATCTCGCTATGGAGTCGAGCGTATTGATGCATTAAATACAATG
CTGCTGACTCTCGGTGGAGTTGGAATAACATATAATGGTGAAGAATTTGGAATGGTCGAT
TACAAGAACATCTCATGGAAAGACACACAAGATCCAGCAGCATGTAACACAAATCCAGAT
GTTTATCAAAAATACTCTAGAGATCCAGAACGAACACCCTTCCAGTGGGACAATACAAAA
AATGCTGGATTTTCAACAGCAGACAAAACATGGCTTCCTGTCAATCCCAATTATGTCGAT
CTTAATTTAAAAGCAGAAAAAGAAGCCGAGCACAGTCATTTCAAGTTTTATCAAAAACTC
ACCAAATTACGTCAACATAAGACTTTTCAAAATGGCAATATAAAAGTCCAGGCACTCAGC
AAATATGTGTTTGCATTTGTTCGGGAATTGCGTGATAGCGATACATTTGTTGTCGTAATT
AATTTAGGAGCTAATGCAGAGGAAGTAAGTCTAAAACCTTTCAAAACACTCCATGATAAA
CTAAAAGTTGTTGCTGCTGCTCCTACATCACAATATCATGAGGGCTCGATCGTATCAATA
AATAGCGTTCCACTTGATTCATATGATTGCGTCATATTTACTGATGGTGCTACGGAACAT
AATAGAGATTTTATAGATTATATGGTGATTACTGTAGGGAAGTGA
>g5991.t1 Gene=g5991 Length=594
MRILLLAVILNWNLLSICGDEENKDWWQTTVFYQIYPRSFQDSNGDGIGDLKGITSRLDH
LKEAGVGATWLSPIFKSPMVDFGYDISDYLSIQEEYGTMEDFDELIAKAKELGIKIILDF
VPNHSSDKHEWFIKSEAKDPEYIDFYIWHDGKPNPDGGRNLEPNNWVSVFYGSAWTWSDK
RQQYYLHQFTKQQPDLNYRNPKVVERMSDVLRFWLKKGVYGFRVDAINHLFEVEDFIDEP
VNAFDPDPKSYGHLFHYYTVDLNEVYDVVYQWRDLLDDFKKTHGGETRIMMTEAYANMSF
VMRYYENDEGTRKGSHIPFNFLMISDLNGDSTARDFAHTISKWMNYMPVGFTANWVMGNH
DNSRVASRYGVERIDALNTMLLTLGGVGITYNGEEFGMVDYKNISWKDTQDPAACNTNPD
VYQKYSRDPERTPFQWDNTKNAGFSTADKTWLPVNPNYVDLNLKAEKEAEHSHFKFYQKL
TKLRQHKTFQNGNIKVQALSKYVFAFVRELRDSDTFVVVINLGANAEEVSLKPFKTLHDK
LKVVAAAPTSQYHEGSIVSINSVPLDSYDCVIFTDGATEHNRDFIDYMVITVGK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 13 | g5991.t1 | CDD | cd11328 | AmyAc_maltase | 23 | 493 | 0.0 |
| 6 | g5991.t1 | Gene3D | G3DSA:3.20.20.80 | Glycosidases | 26 | 485 | 8.0E-173 |
| 7 | g5991.t1 | Gene3D | G3DSA:3.90.400.10 | - | 126 | 200 | 8.0E-173 |
| 2 | g5991.t1 | PANTHER | PTHR10357 | ALPHA-AMYLASE FAMILY MEMBER | 20 | 579 | 1.3E-273 |
| 3 | g5991.t1 | PANTHER | PTHR10357:SF177 | FI17312P1-RELATED | 20 | 579 | 1.3E-273 |
| 1 | g5991.t1 | Pfam | PF00128 | Alpha amylase, catalytic domain | 49 | 402 | 2.7E-104 |
| 9 | g5991.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 16 | - |
| 10 | g5991.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 2 | - |
| 11 | g5991.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 3 | 10 | - |
| 12 | g5991.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 11 | 16 | - |
| 8 | g5991.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 17 | 594 | - |
| 14 | g5991.t1 | SMART | SM00642 | aamy | 34 | 431 | 1.2E-140 |
| 4 | g5991.t1 | SUPERFAMILY | SSF51445 | (Trans)glycosidases | 24 | 485 | 5.45E-131 |
| 5 | g5991.t1 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 19 | - |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5991/g5991.t1; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5991.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 transcript has been annotated with K01187 (alpha-glucosidase)
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.
