General information for g13964.t5
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as 1-4-alpha-glucan-branching enzyme.
Parent gene
- The parent gene g13964 is located on chr_1: 33645150..33648109 (- 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_1 | g13964 | g13964.t5 | TTS | g13964.t5 | 33643589 | 33643589 |
| chr_1 | g13964 | g13964.t5 | isoform | g13964.t5 | 33643858 | 33648109 |
| chr_1 | g13964 | g13964.t5 | exon | g13964.t5.exon1 | 33643858 | 33644039 |
| chr_1 | g13964 | g13964.t5 | cds | g13964.t5.CDS1 | 33643858 | 33644039 |
| chr_1 | g13964 | g13964.t5 | exon | g13964.t5.exon2 | 33644101 | 33644932 |
| chr_1 | g13964 | g13964.t5 | cds | g13964.t5.CDS2 | 33644101 | 33644932 |
| chr_1 | g13964 | g13964.t5 | exon | g13964.t5.exon3 | 33644998 | 33645788 |
| chr_1 | g13964 | g13964.t5 | cds | g13964.t5.CDS3 | 33644998 | 33645788 |
| chr_1 | g13964 | g13964.t5 | exon | g13964.t5.exon4 | 33645852 | 33646021 |
| chr_1 | g13964 | g13964.t5 | cds | g13964.t5.CDS4 | 33645852 | 33646021 |
| chr_1 | g13964 | g13964.t5 | exon | g13964.t5.exon5 | 33647820 | 33647933 |
| chr_1 | g13964 | g13964.t5 | cds | g13964.t5.CDS5 | 33647820 | 33647902 |
| chr_1 | g13964 | g13964.t5 | exon | g13964.t5.exon6 | 33648019 | 33648109 |
| chr_1 | g13964 | g13964.t5 | TSS | g13964.t5 | 33648109 | 33648109 |
Sequences
>g13964.t5 Gene=g13964 Length=2180
AGTTGTCAGTCTCCCGTCAACCGGTTAAAACGTTCTCTTCCAAACAAATAAAATTATTGA
ATACTTTTTACGTGAAGCGATAATAAGACCGACAATTTTTTTTTGTTATTTAAAAAAAGA
AAATGTCTAATCCAGTAGAAAATATTGAGCAATTGTTTCATGATGATCCATGGCTACGTC
CACATGAACATGAAATCAGAAGAAGACACGGTATTGTTAAAGATTGGCTGAAGCGTATCG
ATGAGTCTGAAGGTGGTCTCGATAATTTCACTCAGGCATACAAATACTATGGCATTCATT
TTCAACAAGATAATTCTGTTATTGCACGTGAATGGGCGCCAGGCGCAAAAGAATTGTTTT
TAACAGGCGATTTCAATAACTGGCAATGGTTGTCACATCCATTTAAAAAGTTACCTTTTG
GAAAATGGGAAATTGTATTGCCACCTCATGAAGATGGAACCCCGCAAATCCGTCACATGT
CTGAAGTTAAAATTATTGTTCGAAAACAAAATGATGAACTTGTAGATCGTTTATCTCCTT
GGGCAAAATATGTTGTTCAGCCACCGAAAGAGGCTAATCAAGGTACAAATTATAAACAAT
ATGTATTCAACCCGCCTGCACATGAAAAATATCATTTTCGTCATAAGCGCCCTAAGGCTC
CTCGTTCATTACGTATTTACGAGTGTCACGTGGGAATTGCTACTGAGAAATATGAAGTAG
GTTCATACAAGGATTTTGCTGATAACGTCATTCCGCGCATCGTTCGACAAGGTTACAATG
CAATACAAGTGATGGCAATTATGGAACACGCTTATTATGCAAGTTTCGGTTATCAAGTCA
CTAGCTTCTATGCGGCATCATCACGCTATGGCACACCCGAAGAATTAAAGTACATGATTG
ATGTTGCACATAAACATGGCATTTATGTCATGCTTGATGTCGTACATTCACATGCTAGCA
AGAATGTCAGTGATGGTCTGAATCAATTTGATGGCACAAATGCTTGCTTCTTTCATGATG
GCAGTAGGGGAGAACATTCATTATGGGATTCAAGACTTTTCAACTACACTGAATTTGAAG
TTATGCGCTTCCTTATGTCTAATTTACGTTGGTGGCACGATGAATATCAATTTGATGGCT
ATCGATTTGATGGTGTTACATCTATGCTTTATCATTCGCACGGTATTGGTGAGGGATTTT
CGGGTGATTACAACGAATATTTTGGACTTAACGTTGATACCGACGCATTCGTTTATTTGG
CATTGGCGAATAAGTTCCTTCACGATTTGGATCCAAATGTCATCACAATCGCTGAAGACG
TGAGCGGAATGCCGAGTCTTTGTCGTCCATTCCATGAGGGTGGCGGTGGATTTGATTATC
GTCTTGCAATGGCTATACCAGACAAGTGGATTAAAGTCCTAAAAGAGCAATCTGATGAAG
ACTGGGATATTGGAAATATTGTGCATACACTTACAAATCGTCGTTGGAAAGAGAAGGCAG
TTGCATATGCTGAAAGTCACGATCAAGCACTCGTAGGTGATAAGACAATAGCCTTTTGGC
TTATGGACAAGGAAATGTATTGGCAAATGTCAACCTTGGGTGATTCTTCATTAATTATCG
ATAGAGGCATAGCTTTGCATAAATTAATTCGTTTAATAACTAATGCACTTGGTGGTGAAG
CATACTTGAATTTTATGGGTAATGAATTTGGTCATCCTGAATGGCTTGATTTTCCTAGAA
TTGGTAATGGCGAGTCATATCATTATTGTCGCCGTCAATGGAGTCTTGTTGATGATGAAT
TGTTAAAGTACAAATTTTTGAATAATTGGGATCGTGCAATGAATTTTACTGAAGAGAAAT
ATGGTTGGTTGAGTGCAAATGATTCAGGCTATGTTAGTTGGAAACATCAAGATGATAAAG
TTGTTGCTTTCGAACGAGTCGGCCTTGTTTTTGTCATTAATTTTCATTCAACTAAAAGTT
TTACTGATTATAAAGTTGGCGTTGAAGTTCCTGGCAGTTATAAAATTGTATTGAATTCGG
ATGCTCCTGAATTTGGTGGATTTAATCGCATTGATTCGTCAAATGTTCATCAAACTTTTC
CAGAGGGTTACGCTGGACGACGTAATCATATGTGCGTGTATATTCCAAGTCGCACAGCAA
TTGTTCTTGCTAAAGTCTGA
>g13964.t5 Gene=g13964 Length=685
MSNPVENIEQLFHDDPWLRPHEHEIRRRHGIVKDWLKRIDESEGGLDNFTQAYKYYGIHF
QQDNSVIAREWAPGAKELFLTGDFNNWQWLSHPFKKLPFGKWEIVLPPHEDGTPQIRHMS
EVKIIVRKQNDELVDRLSPWAKYVVQPPKEANQGTNYKQYVFNPPAHEKYHFRHKRPKAP
RSLRIYECHVGIATEKYEVGSYKDFADNVIPRIVRQGYNAIQVMAIMEHAYYASFGYQVT
SFYAASSRYGTPEELKYMIDVAHKHGIYVMLDVVHSHASKNVSDGLNQFDGTNACFFHDG
SRGEHSLWDSRLFNYTEFEVMRFLMSNLRWWHDEYQFDGYRFDGVTSMLYHSHGIGEGFS
GDYNEYFGLNVDTDAFVYLALANKFLHDLDPNVITIAEDVSGMPSLCRPFHEGGGGFDYR
LAMAIPDKWIKVLKEQSDEDWDIGNIVHTLTNRRWKEKAVAYAESHDQALVGDKTIAFWL
MDKEMYWQMSTLGDSSLIIDRGIALHKLIRLITNALGGEAYLNFMGNEFGHPEWLDFPRI
GNGESYHYCRRQWSLVDDELLKYKFLNNWDRAMNFTEEKYGWLSANDSGYVSWKHQDDKV
VAFERVGLVFVINFHSTKSFTDYKVGVEVPGSYKIVLNSDAPEFGGFNRIDSSNVHQTFP
EGYAGRRNHMCVYIPSRTAIVLAKV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 14 | g13964.t5 | CDD | cd02854 | E_set_GBE_euk_N | 63 | 152 | 1.70839E-39 |
| 13 | g13964.t5 | CDD | cd11321 | AmyAc_bac_euk_BE | 168 | 571 | 0.0 |
| 11 | g13964.t5 | Coils | Coil | Coil | 682 | 685 | - |
| 10 | g13964.t5 | Gene3D | G3DSA:3.20.20.80 | Glycosidases | 15 | 578 | 5.0E-280 |
| 8 | g13964.t5 | Gene3D | G3DSA:2.60.40.10 | Immunoglobulins | 51 | 169 | 5.0E-280 |
| 9 | g13964.t5 | Gene3D | G3DSA:2.60.40.1180 | - | 586 | 685 | 1.2E-37 |
| 4 | g13964.t5 | PANTHER | PTHR43651 | 1,4-ALPHA-GLUCAN-BRANCHING ENZYME | 9 | 684 | 0.0 |
| 12 | g13964.t5 | PIRSF | PIRSF000463 | GlgB | 3 | 685 | 9.8E-193 |
| 1 | g13964.t5 | Pfam | PF02922 | Carbohydrate-binding module 48 (Isoamylase N-terminal domain) | 56 | 141 | 1.8E-13 |
| 3 | g13964.t5 | Pfam | PF00128 | Alpha amylase, catalytic domain | 217 | 289 | 1.4E-10 |
| 2 | g13964.t5 | Pfam | PF02806 | Alpha amylase, C-terminal all-beta domain | 590 | 684 | 1.5E-23 |
| 15 | g13964.t5 | SMART | SM00642 | aamy | 191 | 573 | 4.7E-6 |
| 6 | g13964.t5 | SUPERFAMILY | SSF81296 | E set domains | 49 | 153 | 6.2E-17 |
| 7 | g13964.t5 | SUPERFAMILY | SSF51445 | (Trans)glycosidases | 171 | 584 | 2.19E-91 |
| 5 | g13964.t5 | SUPERFAMILY | SSF51011 | Glycosyl hydrolase domain | 589 | 683 | 1.37E-24 |
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:0005978 | glycogen biosynthetic process | BP |
| GO:0004553 | hydrolase activity, hydrolyzing O-glycosyl compounds | MF |
| GO:0005975 | carbohydrate metabolic process | BP |
| GO:0003844 | 1,4-alpha-glucan branching enzyme activity | MF |
| GO:0003824 | catalytic activity | MF |
KEGG
Orthology
- This transcript has been annotated with K00700 (1,4-alpha-glucan branching enzyme)
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