General information for g13302.t19
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Trehalose-6-phosphate synthase beta].
Parent gene
- The parent gene g13302 is located on chr_1: 29013994..29015173 (- 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 | g13302 | g13302.t19 | isoform | g13302.t19 | 29011405 | 29015173 |
| chr_1 | g13302 | g13302.t19 | exon | g13302.t19.exon1 | 29011405 | 29011414 |
| chr_1 | g13302 | g13302.t19 | exon | g13302.t19.exon2 | 29011483 | 29011827 |
| chr_1 | g13302 | g13302.t19 | exon | g13302.t19.exon3 | 29012151 | 29012422 |
| chr_1 | g13302 | g13302.t19 | cds | g13302.t19.CDS1 | 29012356 | 29012422 |
| chr_1 | g13302 | g13302.t19 | exon | g13302.t19.exon4 | 29012483 | 29013176 |
| chr_1 | g13302 | g13302.t19 | cds | g13302.t19.CDS2 | 29012483 | 29013176 |
| chr_1 | g13302 | g13302.t19 | exon | g13302.t19.exon5 | 29013279 | 29013372 |
| chr_1 | g13302 | g13302.t19 | cds | g13302.t19.CDS3 | 29013279 | 29013372 |
| chr_1 | g13302 | g13302.t19 | exon | g13302.t19.exon6 | 29013456 | 29013560 |
| chr_1 | g13302 | g13302.t19 | cds | g13302.t19.CDS4 | 29013456 | 29013545 |
| chr_1 | g13302 | g13302.t19 | exon | g13302.t19.exon7 | 29013625 | 29013682 |
| chr_1 | g13302 | g13302.t19 | exon | g13302.t19.exon8 | 29015018 | 29015173 |
| chr_1 | g13302 | g13302.t19 | TSS | g13302.t19 | 29015404 | 29015404 |
| chr_1 | g13302 | g13302.t19 | TTS | g13302.t19 | NA | NA |
Sequences
>g13302.t19 Gene=g13302 Length=1734
ATGACAAAGGAAAATGATCCAAAACATGAACCGGAAATAACTGTTACTGCAGCTGAGCAG
TCAGCACCTAAGAGCAAACTTATTGTTGTTTCCAATCGTTTACCATTTGTTCTTAAGAAG
GACATTAGTGGAAAATTATATCGTCAAGCAAGGTGGTGCCGGTGGATTAGTCACAGCAGT
TGCTCCTGTTGTTATTAAGGGAAAAGGACAATGGGTCGGCTGGCCAGGTATGCATCTTCC
CAAAGATTTTGATGACTTACAAATTCCCGAATCTGATCCAAACGATCAAACACCAACCGC
TGGTTTAAAATCAGAGCAAGTAGTAACAGTCAATATGAGCCCTGATCTTTTCGAAGACTA
CTATAATGGTTGCTGTAATGGAACACATTGGCCTCTTTTCCATTCAATGCCGGGTCGTGC
TATTTTCTCAACTGATCACTGGAGAGCGTATGTGGCCGCTAACATTATGTTTGCTGATAA
GACCATTGAAGCAATTGAGCGTTGCACAAAGAACGGCGGACCACCACCCATTGTTTGGAT
TCATGATTATCATTTGATGCTTTGTGCAAATTATGTTCGTGAGAAGGCTGAAGAAAAGAA
TCTCAACATTCAACTTGCATTCTTTTTGCATATTCCATTTCCACCATGGGATATTTTCCG
TTTGTTCCCATGGGCTGACGAAATTCTTCAAGGAATGCTTGCTTGCGATATGGTTGGCTT
CCACATTCGCGATTATTGTATCAATTTTGTTGACTGCTGTCAAAGAAGTCTCGGTTGTCG
TGTTGATCGCAAAAATCTTTTAGTTGAACATGGTGGACGTTCTGTTCGTGTTCGTCCATT
GCCAATTGGAATTCCTTTCGATAGATTTGTCGAATTGGCAAAAAGTGCAAAGAGAATCAT
CAAGACAAAGCAAAAGATTATTTTGGGAGTTGATCGTCTTGATTATACAAAAGGATTAGT
CAATCGCTTGAAAGCTTTTGAAATTTTACTCGAAAAGCATCCAGAGCATCGTGGAACTGT
CAGTTTCTTGCAAATCTCAGTTCCATCACGTACTGATGTAGCTGAATATCAGCAATTAAA
AGAAGAAATGGATCAACTTGTTGGTATGTCGCATAAACGGACGTTTCTCAACAGCTGTTT
GGGCACCAATCCGTTATATTTATGGTTGTGTTAGTCAAAGTGAATTGGCAGCTTATTACC
GTGATGCAGCAGTTGCTCTTGTGACACCACTTCGTGATGGTATGAATCTCGTTGCAAAAG
AATTTGTGGCATGTCAAATTAATGAACCTCCTGGTGTCTTGATTGTAAGTTTGCAAGAAG
AATATTTAATTTACATGGATAAAAATTTTATTTTATCTATTAGGTCAGTCCATTTGCTGT
TTTATTTTTTTCGCAGTTACATCGGCTATTCACACAAGCTTGCTCTTTTGCTTGATTATG
ATGGTACATTGGCACCCATTGCTCCACATCCTGATCTTGCTACGCTTCCACAAGAAACAA
AGAATGTTTTGCATCGTTTGAGCAATTTAAATGAAGTCTATATTGCAGTCATTTCTGGTC
GTAGTGTTGAAAATGTTAAAAACATGGTTGGAATCGAAGGCATCACATATGCCGGTAATC
ACGGTTTAGAAATTTTGCATCCCGATGGAAGTAAGTTCGTTCACCCTATGCCAGTCGAAT
ATGAGGAAAAAGTCAGTAAATTATTGAGAGCATTGCAAGATTCGGTTTGTCATG
>g13302.t19 Gene=g13302 Length=314
MHLPKDFDDLQIPESDPNDQTPTAGLKSEQVVTVNMSPDLFEDYYNGCCNGTHWPLFHSM
PGRAIFSTDHWRAYVAANIMFADKTIEAIERCTKNGGPPPIVWIHDYHLMLCANYVREKA
EEKNLNIQLAFFLHIPFPPWDIFRLFPWADEILQGMLACDMVGFHIRDYCINFVDCCQRS
LGCRVDRKNLLVEHGGRSVRVRPLPIGIPFDRFVELAKSAKRIIKTKQKIILGVDRLDYT
KGLVNRLKAFEILLEKHPEHRGTVSFLQISVPSRTDVAEYQQLKEEMDQLVGMSHKRTFL
NSCLGTNPLYLWLC
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g13302.t19 | CDD | cd03788 | GT20_TPS | 13 | 292 | 1.83838E-117 |
| 6 | g13302.t19 | Gene3D | G3DSA:3.40.50.2000 | Glycogen Phosphorylase B; | 8 | 223 | 2.5E-71 |
| 7 | g13302.t19 | Gene3D | G3DSA:3.40.50.2000 | Glycogen Phosphorylase B; | 224 | 308 | 3.6E-21 |
| 5 | g13302.t19 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 26 | - |
| 2 | g13302.t19 | PANTHER | PTHR10788:SF97 | BCDNA.GH08860 | 15 | 296 | 3.9E-100 |
| 3 | g13302.t19 | PANTHER | PTHR10788 | TREHALOSE-6-PHOSPHATE SYNTHASE | 15 | 296 | 3.9E-100 |
| 1 | g13302.t19 | Pfam | PF00982 | Glycosyltransferase family 20 | 18 | 292 | 1.9E-78 |
| 4 | g13302.t19 | SUPERFAMILY | SSF53756 | UDP-Glycosyltransferase/glycogen phosphorylase | 26 | 292 | 3.72E-82 |
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:0005992 | trehalose biosynthetic 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.
