General information for g13302.t12
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.t12 | TTS | g13302.t12 | 29010178 | 29010178 |
| chr_1 | g13302 | g13302.t12 | isoform | g13302.t12 | 29010236 | 29012162 |
| chr_1 | g13302 | g13302.t12 | exon | g13302.t12.exon1 | 29010236 | 29010909 |
| chr_1 | g13302 | g13302.t12 | cds | g13302.t12.CDS1 | 29010571 | 29010909 |
| chr_1 | g13302 | g13302.t12 | exon | g13302.t12.exon2 | 29011047 | 29011209 |
| chr_1 | g13302 | g13302.t12 | cds | g13302.t12.CDS2 | 29011047 | 29011209 |
| chr_1 | g13302 | g13302.t12 | exon | g13302.t12.exon3 | 29011284 | 29011414 |
| chr_1 | g13302 | g13302.t12 | cds | g13302.t12.CDS3 | 29011284 | 29011414 |
| chr_1 | g13302 | g13302.t12 | exon | g13302.t12.exon4 | 29011483 | 29011810 |
| chr_1 | g13302 | g13302.t12 | cds | g13302.t12.CDS4 | 29011483 | 29011810 |
| chr_1 | g13302 | g13302.t12 | exon | g13302.t12.exon5 | 29011883 | 29012162 |
| chr_1 | g13302 | g13302.t12 | cds | g13302.t12.CDS5 | 29011883 | 29012136 |
| chr_1 | g13302 | g13302.t12 | TSS | g13302.t12 | NA | NA |
Sequences
>g13302.t12 Gene=g13302 Length=1576
GTCCATTTGCTGGTGCAGGAGAAACAATGCATGAAGCTTTAGTATGCAATCCATATGAAA
TTTCAGAAGCAGCTGAAGTTATTCATCGTGCTTTGACAATGCCAGAAGATGAAAGATCAT
TGCGAATGAGCAGATTACGTCGTAGAGAAATGGAAAATGATGTTAATTATTGGATGCGGT
CATTTATGAAAGCAATGGGATCAGACATAGAGCAAGATGAGATCGGAACAACTAGTTTGC
AACCAGTCACAATTGATGACTTTGATGATTATTTGTTGAATTACATCGGCTATTCACACA
AGCTTGCTCTTTTGCTTGATTATGATGGTACATTGGCACCCATTGCTCCACATCCTGATC
TTGCTACGCTTCCACAAGAAACAAAGAATGTTTTGCATCGTTTGAGCAATTTAAATGAAG
TCTATATTGCAGTCATTTCTGGTCGTAGTGTTGAAAATGTTAAAAACATGGTTGGAATCG
AAGGCATCACATATGCCGGTAATCACGGTTTAGAAATTTTGCATCCCGATGGAAGTAAGT
TCGTTCACCCTATGCCAGTCGAATATGAGGAAAAAGTCAGTAAATTATTGAGAGCATTGC
AAGATTCGGTTTGTCATGATGGAGCTTGGGTAGAGAACAAAGGTGCCCTTTTGACTTTCC
ATTATCGTGATACACCAAATGAAATGCGTCCACAAATGATTGACAAGGCAAAATTTTTGA
TTGAGCATTTTGGATTCACTGCAAGTGAATCACTATGTGCTATTGAAGCTAAGCCACCAG
TCCCTTGGAATAAAGGACGTGCTTCAATTTATATTCTTCGTACTGCATTTGGTGTTGATT
GGAGTGAGAGAATCAAAATTATTTACGTTGGAGATGACGTCACTGATGAGGACGCAATGA
TGGCTCTACGAGGCATGGCAGCGACGTTCAGAATCGCAAGTTCCAATATTATTAAAACCG
CAGCTGAACGCCGTTTGCCCTCCACCGATTCCGTTCTCACCATGTTAAAATGGATTGAGC
GTCATTTTATGAATAAACGTCCACGTAAGATCTCAAATAATCAGCGACCAAAGAAAGTTT
CTTCATTTAACAATAACAATAGTATCGGTTTTCCTATCCATATGTCATTCGACTTAACCA
CCTCCCCTTCAAGAAGTCCACGTTCATCTCCATTACCAAGCCCATCCTATAGTCAAGAAA
GTAGCAGCAGTAACAGTAGCAGCAGCAGTGAAGAATCATAGAATTTCTTTTTATTTAGTA
AATTTTTAATTATCAATAATCTTGATAGGTTCAATAGAGTTTTTTTAATCGTTCCTAATA
ATTTTTACAAATTTTCAATGAAATAATTTGATGAAATTCTAATATATATAGAATTTTAAT
GTTATGCCAAAAATTTTTAAAATTAAATAATTATTATTGTCTCTTCTTTTCTATTGGACA
TTCTAGACAATGCATAAAAATATTTTTCAAAACGAATTTTATAAATAAGGCAAAAAAACT
TAAATTTAAGGAGAAAAAATTTATTTCTGTGAATTATAAAATATTTCTTTATTCAAATTT
GAAAATAAGTCGCTAT
>g13302.t12 Gene=g13302 Length=404
MHEALVCNPYEISEAAEVIHRALTMPEDERSLRMSRLRRREMENDVNYWMRSFMKAMGSD
IEQDEIGTTSLQPVTIDDFDDYLLNYIGYSHKLALLLDYDGTLAPIAPHPDLATLPQETK
NVLHRLSNLNEVYIAVISGRSVENVKNMVGIEGITYAGNHGLEILHPDGSKFVHPMPVEY
EEKVSKLLRALQDSVCHDGAWVENKGALLTFHYRDTPNEMRPQMIDKAKFLIEHFGFTAS
ESLCAIEAKPPVPWNKGRASIYILRTAFGVDWSERIKIIYVGDDVTDEDAMMALRGMAAT
FRIASSNIIKTAAERRLPSTDSVLTMLKWIERHFMNKRPRKISNNQRPKKVSSFNNNNSI
GFPIHMSFDLTTSPSRSPRSSPLPSPSYSQESSSSNSSSSSEES
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 13 | g13302.t12 | CDD | cd01627 | HAD_TPP | 94 | 323 | 1.20768E-66 |
| 10 | g13302.t12 | Gene3D | G3DSA:3.40.50.2000 | Glycogen Phosphorylase B; | 1 | 41 | 5.6E-7 |
| 8 | g13302.t12 | Gene3D | G3DSA:3.40.50.1000 | - | 95 | 316 | 6.2E-38 |
| 9 | g13302.t12 | Gene3D | G3DSA:3.30.70.1020 | - | 177 | 251 | 6.2E-38 |
| 7 | g13302.t12 | MobiDBLite | mobidb-lite | consensus disorder prediction | 371 | 404 | - |
| 3 | g13302.t12 | PANTHER | PTHR43768 | TREHALOSE 6-PHOSPHATE PHOSPHATASE | 65 | 329 | 1.9E-42 |
| 4 | g13302.t12 | PANTHER | PTHR43768:SF3 | TREHALOSE 6-PHOSPHATE PHOSPHATASE | 65 | 329 | 1.9E-42 |
| 1 | g13302.t12 | Pfam | PF00982 | Glycosyltransferase family 20 | 3 | 57 | 3.5E-10 |
| 2 | g13302.t12 | Pfam | PF02358 | Trehalose-phosphatase | 96 | 295 | 9.4E-35 |
| 5 | g13302.t12 | SUPERFAMILY | SSF53756 | UDP-Glycosyltransferase/glycogen phosphorylase | 2 | 57 | 6.28E-10 |
| 6 | g13302.t12 | SUPERFAMILY | SSF56784 | HAD-like | 94 | 332 | 3.07E-36 |
| 12 | g13302.t12 | TIGRFAM | TIGR00685 | T6PP: trehalose-phosphatase | 91 | 330 | 4.1E-42 |
| 11 | g13302.t12 | TIGRFAM | TIGR01484 | HAD-SF-IIB: HAD hydrolase, family IIB | 95 | 293 | 2.2E-22 |
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 transcript has been annotated with K01194 (alpha,alpha-trehalase)
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