General information for g9452.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Glycine N-methyltransferase.
Parent gene
- The parent gene g9452 is located on chr_1: 3146358..3146958 (- 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 | g9452 | g9452.t2 | isoform | g9452.t2 | 3139064 | 3146958 |
| chr_1 | g9452 | g9452.t2 | exon | g9452.t2.exon1 | 3139064 | 3139074 |
| chr_1 | g9452 | g9452.t2 | exon | g9452.t2.exon2 | 3145471 | 3145906 |
| chr_1 | g9452 | g9452.t2 | cds | g9452.t2.CDS1 | 3145741 | 3145906 |
| chr_1 | g9452 | g9452.t2 | exon | g9452.t2.exon3 | 3145968 | 3146068 |
| chr_1 | g9452 | g9452.t2 | cds | g9452.t2.CDS2 | 3145968 | 3146068 |
| chr_1 | g9452 | g9452.t2 | exon | g9452.t2.exon4 | 3146205 | 3146461 |
| chr_1 | g9452 | g9452.t2 | cds | g9452.t2.CDS3 | 3146205 | 3146461 |
| chr_1 | g9452 | g9452.t2 | exon | g9452.t2.exon5 | 3146619 | 3146958 |
| chr_1 | g9452 | g9452.t2 | cds | g9452.t2.CDS4 | 3146619 | 3146958 |
| chr_1 | g9452 | g9452.t2 | TSS | g9452.t2 | 3147055 | 3147055 |
| chr_1 | g9452 | g9452.t2 | TTS | g9452.t2 | NA | NA |
Sequences
>g9452.t2 Gene=g9452 Length=1145
ATGCCAGAATCTGAACAAACAATGTTTATGAGGTCAAATGGAATTTCTGCAGAAGGCACA
AGGGATCAATATGCAGATGGAAAAGCAGCGAAAGTTTGGGAAATTTTTATTGGCGATAAA
AAATCGAGAACAAAAAATTATTGTGATTTTCTTGTAAATTTATTGCGTAATCGTGGATGT
CGTAGAATCCTTGATGTGGCTTGTGGCACAGGCGTTGATTCTATAATGCTCGTTGAAGAA
GGTTTTGAAGTAGTTTCATGTGATGCTTCTGATAAAATGCTCAAGTATGCACTTAAAGAA
CGTTGGGAACGCCGTAAGGATTCTAAATTTGATAATTGGGTCATTGAAGAGGCAAATTGG
TTGACATTGTATGATGATATGCGTGAATATCTTCAAGGAGGTTTTGATGCTGTGATCTGT
CTTGGAAATTCATTTGCTCACATGCTCGATAATGACGGTGACCAAAATCAACAAAAGCAA
GCGATTAGAAACTTTGAAAGATGTTTGAAACCCGGTGGCCTCTTGCTTATTGATCACAGA
AATTATGATACAATCTGTAATGGAGGCAGTGCACCTAGTAAATCGATCTATTATAATAGT
CAACACATGACAGATATTAAAACATCAGTTCTCTATGTCGGTGGAAAACCGAATATAGTT
ACACTTGATTATTTAATCTCGACTGATGAGGGAATAAGTGAATTCAGATTAAGTTATTAT
CCACATCAGTTGGAAGTTTTCAAGAAAATTTTAAAAGAAATCTTTGGTTATGGATGCTAT
CATGAAATTTTTGGAGATTTTAAGGAAATCAATTCTAATGATACCCCTGCTTTTTATATC
CATGTTATCGAAAAGTCTAAATAAATTATGTTGTTGTCGTAAGAAAATTTGCTGCTGCTG
TCGTAAAGTTAAGAGAAAATCAAAAAATTATTTAGGAAGTAATGTTGTTAGTGATAATAT
TAATTTTGTGAGAAAAAATACTAAAAATGTTGAGTTAATTAATTTTAAGACATTATTAAA
TAATGACGAGAGATCAAATGACTATTCAGCTGCTAAACTTTAAATATTGTATATTGTATC
AAAATTTTAGAAATAAATAAAGGTTATTGATAGTGTATAGATTTTATAATGAATAAAAAA
AAAAG
>g9452.t2 Gene=g9452 Length=287
MPESEQTMFMRSNGISAEGTRDQYADGKAAKVWEIFIGDKKSRTKNYCDFLVNLLRNRGC
RRILDVACGTGVDSIMLVEEGFEVVSCDASDKMLKYALKERWERRKDSKFDNWVIEEANW
LTLYDDMREYLQGGFDAVICLGNSFAHMLDNDGDQNQQKQAIRNFERCLKPGGLLLIDHR
NYDTICNGGSAPSKSIYYNSQHMTDIKTSVLYVGGKPNIVTLDYLISTDEGISEFRLSYY
PHQLEVFKKILKEIFGYGCYHEIFGDFKEINSNDTPAFYIHVIEKSK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g9452.t2 | CDD | cd02440 | AdoMet_MTases | 62 | 177 | 0.000 |
| 4 | g9452.t2 | Gene3D | G3DSA:3.30.46.10 | - | 22 | 240 | 0.000 |
| 5 | g9452.t2 | Gene3D | G3DSA:3.40.50.150 | Vaccinia Virus protein VP39 | 37 | 285 | 0.000 |
| 2 | g9452.t2 | PANTHER | PTHR16458 | GLYCINE N-METHYLTRANSFERASE | 9 | 285 | 0.000 |
| 7 | g9452.t2 | PIRSF | PIRSF000385 | Gly_N-mtase | 4 | 287 | 0.000 |
| 1 | g9452.t2 | Pfam | PF13649 | Methyltransferase domain | 63 | 173 | 0.000 |
| 6 | g9452.t2 | ProSiteProfiles | PS51600 | Glycine N-methyltransferase (EC 2.1.1.20 and EC 2.1.1.156) family profile. | 1 | 287 | 135.918 |
| 3 | g9452.t2 | SUPERFAMILY | SSF53335 | S-adenosyl-L-methionine-dependent methyltransferases | 11 | 266 | 0.000 |
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:0017174 | glycine N-methyltransferase activity | MF |
KEGG
Orthology
- This transcript has been annotated with K00552 (glycine N-methyltransferase)
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