Gene loci information

Transcript annotation

  • This transcript has been annotated as Glycine N-methyltransferase .

Parent gene

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.t3 isoform g9452.t3 3139064 3146958
chr_1 g9452 g9452.t3 exon g9452.t3.exon1 3139064 3139074
chr_1 g9452 g9452.t3 exon g9452.t3.exon2 3145471 3145906
chr_1 g9452 g9452.t3 exon g9452.t3.exon3 3145968 3146068
chr_1 g9452 g9452.t3 cds g9452.t3.CDS1 3146046 3146068
chr_1 g9452 g9452.t3 exon g9452.t3.exon4 3146201 3146461
chr_1 g9452 g9452.t3 cds g9452.t3.CDS2 3146201 3146461
chr_1 g9452 g9452.t3 exon g9452.t3.exon5 3146619 3146958
chr_1 g9452 g9452.t3 cds g9452.t3.CDS3 3146619 3146958
chr_1 g9452 g9452.t3 TSS g9452.t3 3147055 3147055
chr_1 g9452 g9452.t3 TTS g9452.t3 NA NA

Sequences

>g9452.t3 Gene=g9452 Length=1149
ATGCCAGAATCTGAACAAACAATGTTTATGAGGTCAAATGGAATTTCTGCAGAAGGCACA
AGGGATCAATATGCAGATGGAAAAGCAGCGAAAGTTTGGGAAATTTTTATTGGCGATAAA
AAATCGAGAACAAAAAATTATTGTGATTTTCTTGTAAATTTATTGCGTAATCGTGGATGT
CGTAGAATCCTTGATGTGGCTTGTGGCACAGGCGTTGATTCTATAATGCTCGTTGAAGAA
GGTTTTGAAGTAGTTTCATGTGATGCTTCTGATAAAATGCTCAAGTATGCACTTAAAGAA
CGTTGGGAACGCCGTAAGGATTCTAAATTTGATAATTGGGTCATTGAAGAGGCAAATTGG
TTGACATTGTATGATGATATGCGTGAATATCTTCAAGGAGGTTTTGATGCTGTGATCTGT
CTTGGAAATTCATTTGCTCACATGCTCGATAATGACGGTGACCAAAATCAACAAAAGCAA
GCGATTAGAAACTTTGAAAGATGTTTGAAACCCGGTGGCCTCTTGCTTATTGATCACAGA
AATTATGATACAATCTGTAATGGAGGCAGTGCACCTAGTAAATCGATCTATTATAATGTA
AAGTCAACACATGACAGATATTAAAACATCAGTTCTCTATGTCGGTGGAAAACCGAATAT
AGTTACACTTGATTATTTAATCTCGACTGATGAGGGAATAAGTGAATTCAGATTAAGTTA
TTATCCACATCAGTTGGAAGTTTTCAAGAAAATTTTAAAAGAAATCTTTGGTTATGGATG
CTATCATGAAATTTTTGGAGATTTTAAGGAAATCAATTCTAATGATACCCCTGCTTTTTA
TATCCATGTTATCGAAAAGTCTAAATAAATTATGTTGTTGTCGTAAGAAAATTTGCTGCT
GCTGTCGTAAAGTTAAGAGAAAATCAAAAAATTATTTAGGAAGTAATGTTGTTAGTGATA
ATATTAATTTTGTGAGAAAAAATACTAAAAATGTTGAGTTAATTAATTTTAAGACATTAT
TAAATAATGACGAGAGATCAAATGACTATTCAGCTGCTAAACTTTAAATATTGTATATTG
TATCAAAATTTTAGAAATAAATAAAGGTTATTGATAGTGTATAGATTTTATAATGAATAA
AAAAAAAAG

>g9452.t3 Gene=g9452 Length=207
MPESEQTMFMRSNGISAEGTRDQYADGKAAKVWEIFIGDKKSRTKNYCDFLVNLLRNRGC
RRILDVACGTGVDSIMLVEEGFEVVSCDASDKMLKYALKERWERRKDSKFDNWVIEEANW
LTLYDDMREYLQGGFDAVICLGNSFAHMLDNDGDQNQQKQAIRNFERCLKPGGLLLIDHR
NYDTICNGGSAPSKSIYYNVKSTHDRY

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g9452.t3 CDD cd02440 AdoMet_MTases 62 177 0.000
4 g9452.t3 Gene3D G3DSA:3.40.50.150 Vaccinia Virus protein VP39 41 205 0.000
2 g9452.t3 PANTHER PTHR16458 GLYCINE N-METHYLTRANSFERASE 8 205 0.000
1 g9452.t3 Pfam PF13649 Methyltransferase domain 63 173 0.000
5 g9452.t3 ProSiteProfiles PS51600 Glycine N-methyltransferase (EC 2.1.1.20 and EC 2.1.1.156) family profile. 1 207 103.073
3 g9452.t3 SUPERFAMILY SSF53335 S-adenosyl-L-methionine-dependent methyltransferases 11 194 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