Gene loci information

Transcript annotation

  • This transcript has been annotated as 1-4-alpha-glucan-branching enzyme.

Parent gene

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.t9 isoform g13964.t9 33645003 33647902
chr_1 g13964 g13964.t9 exon g13964.t9.exon1 33645003 33645788
chr_1 g13964 g13964.t9 cds g13964.t9.CDS1 33645004 33645788
chr_1 g13964 g13964.t9 exon g13964.t9.exon2 33645852 33646021
chr_1 g13964 g13964.t9 cds g13964.t9.CDS2 33645852 33646021
chr_1 g13964 g13964.t9 exon g13964.t9.exon3 33647820 33647902
chr_1 g13964 g13964.t9 cds g13964.t9.CDS3 33647820 33647902
chr_1 g13964 g13964.t9 TSS g13964.t9 33648109 33648109
chr_1 g13964 g13964.t9 TTS g13964.t9 NA NA

Sequences

>g13964.t9 Gene=g13964 Length=1039
ATGTCTAATCCAGTAGAAAATATTGAGCAATTGTTTCATGATGATCCATGGCTACGTCCA
CATGAACATGAAATCAGAAGAAGACACGGTATTGTTAAAGATTGGCTGAAGCGTATCGAT
GAGTCTGAAGGTGGTCTCGATAATTTCACTCAGGCATACAAATACTATGGCATTCATTTT
CAACAAGATAATTCTGTTATTGCACGTGAATGGGCGCCAGGCGCAAAAGAATTGTTTTTA
ACAGGCGATTTCAATAACTGGCAATGGTTGTCACATCCATTTAAAAAGTTACCTTTTGGA
AAATGGGAAATTGTATTGCCACCTCATGAAGATGGAACCCCGCAAATCCGTCACATGTCT
GAAGTTAAAATTATTGTTCGAAAACAAAATGATGAACTTGTAGATCGTTTATCTCCTTGG
GCAAAATATGTTGTTCAGCCACCGAAAGAGGCTAATCAAGGTACAAATTATAAACAATAT
GTATTCAACCCGCCTGCACATGAAAAATATCATTTTCGTCATAAGCGCCCTAAGGCTCCT
CGTTCATTACGTATTTACGAGTGTCACGTGGGAATTGCTACTGAGAAATATGAAGTAGGT
TCATACAAGGATTTTGCTGATAACGTCATTCCGCGCATCGTTCGACAAGGTTACAATGCA
ATACAAGTGATGGCAATTATGGAACACGCTTATTATGCAAGTTTCGGTTATCAAGTCACT
AGCTTCTATGCGGCATCATCACGCTATGGCACACCCGAAGAATTAAAGTACATGATTGAT
GTTGCACATAAACATGGCATTTATGTCATGCTTGATGTCGTACATTCACATGCTAGCAAG
AATGTCAGTGATGGTCTGAATCAATTTGATGGCACAAATGCTTGCTTCTTTCATGATGGC
AGTAGGGGAGAACATTCATTATGGGATTCAAGACTTTTCAACTACACTGAATTTGAAGTT
ATGCGCTTCCTTATGTCTAATTTACGTTGGTGGCACGATGAATATCAATTTGATGGCTAT
CGATTTGATGGTGTTACAT

>g13964.t9 Gene=g13964 Length=346
MSNPVENIEQLFHDDPWLRPHEHEIRRRHGIVKDWLKRIDESEGGLDNFTQAYKYYGIHF
QQDNSVIAREWAPGAKELFLTGDFNNWQWLSHPFKKLPFGKWEIVLPPHEDGTPQIRHMS
EVKIIVRKQNDELVDRLSPWAKYVVQPPKEANQGTNYKQYVFNPPAHEKYHFRHKRPKAP
RSLRIYECHVGIATEKYEVGSYKDFADNVIPRIVRQGYNAIQVMAIMEHAYYASFGYQVT
SFYAASSRYGTPEELKYMIDVAHKHGIYVMLDVVHSHASKNVSDGLNQFDGTNACFFHDG
SRGEHSLWDSRLFNYTEFEVMRFLMSNLRWWHDEYQFDGYRFDGVT

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g13964.t9 CDD cd02854 E_set_GBE_euk_N 63 152 0
6 g13964.t9 Gene3D G3DSA:2.60.40.10 Immunoglobulins 51 166 0
7 g13964.t9 Gene3D G3DSA:3.20.20.80 Glycosidases 167 346 0
3 g13964.t9 PANTHER PTHR43651 1,4-ALPHA-GLUCAN-BRANCHING ENZYME 9 346 0
1 g13964.t9 Pfam PF02922 Carbohydrate-binding module 48 (Isoamylase N-terminal domain) 56 141 0
2 g13964.t9 Pfam PF00128 Alpha amylase, catalytic domain 217 290 0
4 g13964.t9 SUPERFAMILY SSF81296 E set domains 49 153 0
5 g13964.t9 SUPERFAMILY SSF51445 (Trans)glycosidases 123 345 0

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: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 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