General information for g13302.t1
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.t1 | TTS | g13302.t1 | 29010178 | 29010178 |
| chr_1 | g13302 | g13302.t1 | isoform | g13302.t1 | 29010571 | 29015173 |
| chr_1 | g13302 | g13302.t1 | exon | g13302.t1.exon1 | 29010571 | 29010909 |
| chr_1 | g13302 | g13302.t1 | cds | g13302.t1.CDS1 | 29010571 | 29010909 |
| chr_1 | g13302 | g13302.t1 | exon | g13302.t1.exon2 | 29011047 | 29011209 |
| chr_1 | g13302 | g13302.t1 | cds | g13302.t1.CDS2 | 29011047 | 29011209 |
| chr_1 | g13302 | g13302.t1 | exon | g13302.t1.exon3 | 29011284 | 29011414 |
| chr_1 | g13302 | g13302.t1 | cds | g13302.t1.CDS3 | 29011284 | 29011414 |
| chr_1 | g13302 | g13302.t1 | exon | g13302.t1.exon4 | 29011483 | 29011810 |
| chr_1 | g13302 | g13302.t1 | cds | g13302.t1.CDS4 | 29011483 | 29011810 |
| chr_1 | g13302 | g13302.t1 | exon | g13302.t1.exon5 | 29011883 | 29012166 |
| chr_1 | g13302 | g13302.t1 | cds | g13302.t1.CDS5 | 29011883 | 29012166 |
| chr_1 | g13302 | g13302.t1 | exon | g13302.t1.exon6 | 29012226 | 29012422 |
| chr_1 | g13302 | g13302.t1 | cds | g13302.t1.CDS6 | 29012226 | 29012422 |
| chr_1 | g13302 | g13302.t1 | exon | g13302.t1.exon7 | 29012487 | 29013176 |
| chr_1 | g13302 | g13302.t1 | cds | g13302.t1.CDS7 | 29012487 | 29013176 |
| chr_1 | g13302 | g13302.t1 | exon | g13302.t1.exon8 | 29013279 | 29013372 |
| chr_1 | g13302 | g13302.t1 | cds | g13302.t1.CDS8 | 29013279 | 29013372 |
| chr_1 | g13302 | g13302.t1 | exon | g13302.t1.exon9 | 29013456 | 29013560 |
| chr_1 | g13302 | g13302.t1 | cds | g13302.t1.CDS9 | 29013456 | 29013560 |
| chr_1 | g13302 | g13302.t1 | exon | g13302.t1.exon10 | 29013625 | 29013682 |
| chr_1 | g13302 | g13302.t1 | cds | g13302.t1.CDS10 | 29013625 | 29013682 |
| chr_1 | g13302 | g13302.t1 | exon | g13302.t1.exon11 | 29015022 | 29015173 |
| chr_1 | g13302 | g13302.t1 | cds | g13302.t1.CDS11 | 29015022 | 29015173 |
| chr_1 | g13302 | g13302.t1 | TSS | g13302.t1 | 29015404 | 29015404 |
Sequences
>g13302.t1 Gene=g13302 Length=2541
ATGACAAAGGAAAATGATCCAAAACATGAACCGGAAATAACTGTTACTGCAGCTGAGCAG
TCAGCACCTAAGAGCAAACTTATTGTTGTTTCCAATCGTTTACCATTTGTTCTTAAGAAG
GACATTAGTGGAAAATTATATCGTCAAGCAAGTGCCGGTGGATTAGTCACAGCAGTTGCT
CCTGTTGTTATTAAGGGAAAAGGACAATGGGTCGGCTGGCCAGGTATGCATCTTCCCAAA
GATTTTGATGACTTACAAATTCCCGAATCTGATCCAAACGATCAAACACCAACCGCTGGT
TTAAAATCAGAGCAAGTAGTAACAGTCAATATGAGCCCTGATCTTTTCGAAGACTACTAT
AATGGTTGCTGTAATGGAACACATTGGCCTCTTTTCCATTCAATGCCGGGTCGTGCTATT
TTCTCAACTGATCACTGGAGAGCGTATGTGGCCGCTAACATTATGTTTGCTGATAAGACC
ATTGAAGCAATTGAGCGTTGCACAAAGAACGGCGGACCACCACCCATTGTTTGGATTCAT
GATTATCATTTGATGCTTTGTGCAAATTATGTTCGTGAGAAGGCTGAAGAAAAGAATCTC
AACATTCAACTTGCATTCTTTTTGCATATTCCATTTCCACCATGGGATATTTTCCGTTTG
TTCCCATGGGCTGACGAAATTCTTCAAGGAATGCTTGCTTGCGATATGGTTGGCTTCCAC
ATTCGCGATTATTGTATCAATTTTGTTGACTGCTGTCAAAGAAGTCTCGGTTGTCGTGTT
GATCGCAAAAATCTTTTAGTTGAACATGGTGGACGTTCTGTTCGTGTTCGTCCATTGCCA
ATTGGAATTCCTTTCGATAGATTTGTCGAATTGGCAAAAAGTGCAAAGAGAATCATCAAG
ACAAAGCAAAAGATTATTTTGGGAGTTGATCGTCTTGATTATACAAAAGGATTAGTCAAT
CGCTTGAAAGCTTTTGAAATTTTACTCGAAAAGCATCCAGAGCATCGTGGAACTGTCAGT
TTCTTGCAAATCTCAGTTCCATCACGTACTGATGTAGCTGAATATCAGCAATTAAAAGAA
GAAATGGATCAACTTGTTGGTCGCATAAACGGACGTTTCTCAACAGCTGTTTGGGCACCA
ATCCGTTATATTTATGGTTGTGTTAGTCAAAGTGAATTGGCAGCTTATTACCGTGATGCA
GCAGTTGCTCTTGTGACACCACTTCGTGATGGTATGAATCTCGTTGCAAAAGAATTTGTG
GCATGTCAAATTAATGAACCTCCTGGTGTCTTGATTGTCAGTCCATTTGCTGGTGCAGGA
GAAACAATGCATGAAGCTTTAGTATGCAATCCATATGAAATTTCAGAAGCAGCTGAAGTT
ATTCATCGTGCTTTGACAATGCCAGAAGATGAAAGATCATTGCGAATGAGCAGATTACGT
CGTAGAGAAATGGAAAATGATGTTAATTATTGGATGCGGTCATTTATGAAAGCAATGGGA
TCAGACATAGAGCAAGATGAGATCGGAACAACTAGTTTGCAACCAGTCACAATTGATGAC
TTTGATGATTATTTGTTGAATTACATCGGCTATTCACACAAGCTTGCTCTTTTGCTTGAT
TATGATGGTACATTGGCACCCATTGCTCCACATCCTGATCTTGCTACGCTTCCACAAGAA
ACAAAGAATGTTTTGCATCGTTTGAGCAATTTAAATGAAGTCTATATTGCAGTCATTTCT
GGTCGTAGTGTTGAAAATGTTAAAAACATGGTTGGAATCGAAGGCATCACATATGCCGGT
AATCACGGTTTAGAAATTTTGCATCCCGATGGAAGTAAGTTCGTTCACCCTATGCCAGTC
GAATATGAGGAAAAAGTCAGTAAATTATTGAGAGCATTGCAAGATTCGGTTTGTCATGAT
GGAGCTTGGGTAGAGAACAAAGGTGCCCTTTTGACTTTCCATTATCGTGATACACCAAAT
GAAATGCGTCCACAAATGATTGACAAGGCAAAATTTTTGATTGAGCATTTTGGATTCACT
GCAAGTGAATCACTATGTGCTATTGAAGCTAAGCCACCAGTCCCTTGGAATAAAGGACGT
GCTTCAATTTATATTCTTCGTACTGCATTTGGTGTTGATTGGAGTGAGAGAATCAAAATT
ATTTACGTTGGAGATGACGTCACTGATGAGGACGCAATGATGGCTCTACGAGGCATGGCA
GCGACGTTCAGAATCGCAAGTTCCAATATTATTAAAACCGCAGCTGAACGCCGTTTGCCC
TCCACCGATTCCGTTCTCACCATGTTAAAATGGATTGAGCGTCATTTTATGAATAAACGT
CCACGTAAGATCTCAAATAATCAGCGACCAAAGAAAGTTTCTTCATTTAACAATAACAAT
AGTATCGGTTTTCCTATCCATATGTCATTCGACTTAACCACCTCCCCTTCAAGAAGTCCA
CGTTCATCTCCATTACCAAGCCCATCCTATAGTCAAGAAAGTAGCAGCAGTAACAGTAGC
AGCAGCAGTGAAGAATCATAG
>g13302.t1 Gene=g13302 Length=846
MTKENDPKHEPEITVTAAEQSAPKSKLIVVSNRLPFVLKKDISGKLYRQASAGGLVTAVA
PVVIKGKGQWVGWPGMHLPKDFDDLQIPESDPNDQTPTAGLKSEQVVTVNMSPDLFEDYY
NGCCNGTHWPLFHSMPGRAIFSTDHWRAYVAANIMFADKTIEAIERCTKNGGPPPIVWIH
DYHLMLCANYVREKAEEKNLNIQLAFFLHIPFPPWDIFRLFPWADEILQGMLACDMVGFH
IRDYCINFVDCCQRSLGCRVDRKNLLVEHGGRSVRVRPLPIGIPFDRFVELAKSAKRIIK
TKQKIILGVDRLDYTKGLVNRLKAFEILLEKHPEHRGTVSFLQISVPSRTDVAEYQQLKE
EMDQLVGRINGRFSTAVWAPIRYIYGCVSQSELAAYYRDAAVALVTPLRDGMNLVAKEFV
ACQINEPPGVLIVSPFAGAGETMHEALVCNPYEISEAAEVIHRALTMPEDERSLRMSRLR
RREMENDVNYWMRSFMKAMGSDIEQDEIGTTSLQPVTIDDFDDYLLNYIGYSHKLALLLD
YDGTLAPIAPHPDLATLPQETKNVLHRLSNLNEVYIAVISGRSVENVKNMVGIEGITYAG
NHGLEILHPDGSKFVHPMPVEYEEKVSKLLRALQDSVCHDGAWVENKGALLTFHYRDTPN
EMRPQMIDKAKFLIEHFGFTASESLCAIEAKPPVPWNKGRASIYILRTAFGVDWSERIKI
IYVGDDVTDEDAMMALRGMAATFRIASSNIIKTAAERRLPSTDSVLTMLKWIERHFMNKR
PRKISNNQRPKKVSSFNNNNSIGFPIHMSFDLTTSPSRSPRSSPLPSPSYSQESSSSNSS
SSSEES
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 14 | g13302.t1 | CDD | cd03788 | GT20_TPS | 26 | 499 | 0.0 |
| 15 | g13302.t1 | CDD | cd01627 | HAD_TPP | 536 | 765 | 5.79084E-63 |
| 10 | g13302.t1 | Gene3D | G3DSA:3.40.50.2000 | Glycogen Phosphorylase B; | 51 | 496 | 9.8E-170 |
| 11 | g13302.t1 | Gene3D | G3DSA:3.40.50.2000 | Glycogen Phosphorylase B; | 285 | 485 | 9.8E-170 |
| 8 | g13302.t1 | Gene3D | G3DSA:3.40.50.1000 | - | 537 | 757 | 3.1E-37 |
| 9 | g13302.t1 | Gene3D | G3DSA:3.30.70.1020 | - | 619 | 693 | 3.1E-37 |
| 7 | g13302.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 813 | 846 | - |
| 3 | g13302.t1 | PANTHER | PTHR10788:SF97 | BCDNA.GH08860 | 16 | 782 | 4.9E-199 |
| 4 | g13302.t1 | PANTHER | PTHR10788 | TREHALOSE-6-PHOSPHATE SYNTHASE | 16 | 782 | 4.9E-199 |
| 1 | g13302.t1 | Pfam | PF00982 | Glycosyltransferase family 20 | 26 | 499 | 2.4E-133 |
| 2 | g13302.t1 | Pfam | PF02358 | Trehalose-phosphatase | 538 | 737 | 4.6E-34 |
| 5 | g13302.t1 | SUPERFAMILY | SSF53756 | UDP-Glycosyltransferase/glycogen phosphorylase | 25 | 499 | 3.66E-145 |
| 6 | g13302.t1 | SUPERFAMILY | SSF56784 | HAD-like | 536 | 774 | 1.8E-35 |
| 13 | g13302.t1 | TIGRFAM | TIGR00685 | T6PP: trehalose-phosphatase | 533 | 772 | 2.2E-41 |
| 12 | g13302.t1 | TIGRFAM | TIGR01484 | HAD-SF-IIB: HAD hydrolase, family IIB | 537 | 735 | 1.0E-21 |
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 K16055 (trehalose 6-phosphate synthase/phosphatase)
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.
