General information for g9452.t16
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.t16 | TTS | g9452.t16 | 3145474 | 3145474 |
| chr_1 | g9452 | g9452.t16 | isoform | g9452.t16 | 3145971 | 3146958 |
| chr_1 | g9452 | g9452.t16 | exon | g9452.t16.exon1 | 3145971 | 3146068 |
| chr_1 | g9452 | g9452.t16 | cds | g9452.t16.CDS1 | 3145973 | 3146068 |
| chr_1 | g9452 | g9452.t16 | exon | g9452.t16.exon2 | 3146205 | 3146461 |
| chr_1 | g9452 | g9452.t16 | cds | g9452.t16.CDS2 | 3146205 | 3146461 |
| chr_1 | g9452 | g9452.t16 | exon | g9452.t16.exon3 | 3146619 | 3146958 |
| chr_1 | g9452 | g9452.t16 | cds | g9452.t16.CDS3 | 3146619 | 3146958 |
| chr_1 | g9452 | g9452.t16 | TSS | g9452.t16 | 3147055 | 3147055 |
Sequences
>g9452.t16 Gene=g9452 Length=695
ATGCCAGAATCTGAACAAACAATGTTTATGAGGTCAAATGGAATTTCTGCAGAAGGCACA
AGGGATCAATATGCAGATGGAAAAGCAGCGAAAGTTTGGGAAATTTTTATTGGCGATAAA
AAATCGAGAACAAAAAATTATTGTGATTTTCTTGTAAATTTATTGCGTAATCGTGGATGT
CGTAGAATCCTTGATGTGGCTTGTGGCACAGGCGTTGATTCTATAATGCTCGTTGAAGAA
GGTTTTGAAGTAGTTTCATGTGATGCTTCTGATAAAATGCTCAAGTATGCACTTAAAGAA
CGTTGGGAACGCCGTAAGGATTCTAAATTTGATAATTGGGTCATTGAAGAGGCAAATTGG
TTGACATTGTATGATGATATGCGTGAATATCTTCAAGGAGGTTTTGATGCTGTGATCTGT
CTTGGAAATTCATTTGCTCACATGCTCGATAATGACGGTGACCAAAATCAACAAAAGCAA
GCGATTAGAAACTTTGAAAGATGTTTGAAACCCGGTGGCCTCTTGCTTATTGATCACAGA
AATTATGATACAATCTGTAATGGAGGCAGTGCACCTAGTAAATCGATCTATTATAATAGT
CAACACATGACAGATATTAAAACATCAGTTCTCTATGTCGGTGGAAAACCGAATATAGTT
ACACTTGATTATTTAATCTCGACTGATGAGGGAAT
>g9452.t16 Gene=g9452 Length=231
MPESEQTMFMRSNGISAEGTRDQYADGKAAKVWEIFIGDKKSRTKNYCDFLVNLLRNRGC
RRILDVACGTGVDSIMLVEEGFEVVSCDASDKMLKYALKERWERRKDSKFDNWVIEEANW
LTLYDDMREYLQGGFDAVICLGNSFAHMLDNDGDQNQQKQAIRNFERCLKPGGLLLIDHR
NYDTICNGGSAPSKSIYYNSQHMTDIKTSVLYVGGKPNIVTLDYLISTDEG
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g9452.t16 | CDD | cd02440 | AdoMet_MTases | 62 | 177 | 0.000 |
| 4 | g9452.t16 | Gene3D | G3DSA:3.40.50.150 | Vaccinia Virus protein VP39 | 41 | 210 | 0.000 |
| 2 | g9452.t16 | PANTHER | PTHR16458 | GLYCINE N-METHYLTRANSFERASE | 8 | 229 | 0.000 |
| 1 | g9452.t16 | Pfam | PF13649 | Methyltransferase domain | 63 | 173 | 0.000 |
| 5 | g9452.t16 | ProSiteProfiles | PS51600 | Glycine N-methyltransferase (EC 2.1.1.20 and EC 2.1.1.156) family profile. | 1 | 231 | 112.804 |
| 3 | g9452.t16 | SUPERFAMILY | SSF53335 | S-adenosyl-L-methionine-dependent methyltransferases | 11 | 228 | 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 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