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.t12 TTS g9452.t12 3145474 3145474
chr_1 g9452 g9452.t12 isoform g9452.t12 3145741 3146958
chr_1 g9452 g9452.t12 exon g9452.t12.exon1 3145741 3145897
chr_1 g9452 g9452.t12 cds g9452.t12.CDS1 3145741 3145897
chr_1 g9452 g9452.t12 exon g9452.t12.exon2 3145968 3146068
chr_1 g9452 g9452.t12 cds g9452.t12.CDS2 3145968 3146068
chr_1 g9452 g9452.t12 exon g9452.t12.exon3 3146205 3146461
chr_1 g9452 g9452.t12 cds g9452.t12.CDS3 3146205 3146461
chr_1 g9452 g9452.t12 exon g9452.t12.exon4 3146619 3146958
chr_1 g9452 g9452.t12 cds g9452.t12.CDS4 3146619 3146958
chr_1 g9452 g9452.t12 TSS g9452.t12 3147055 3147055

Sequences

>g9452.t12 Gene=g9452 Length=855
ATGCCAGAATCTGAACAAACAATGTTTATGAGGTCAAATGGAATTTCTGCAGAAGGCACA
AGGGATCAATATGCAGATGGAAAAGCAGCGAAAGTTTGGGAAATTTTTATTGGCGATAAA
AAATCGAGAACAAAAAATTATTGTGATTTTCTTGTAAATTTATTGCGTAATCGTGGATGT
CGTAGAATCCTTGATGTGGCTTGTGGCACAGGCGTTGATTCTATAATGCTCGTTGAAGAA
GGTTTTGAAGTAGTTTCATGTGATGCTTCTGATAAAATGCTCAAGTATGCACTTAAAGAA
CGTTGGGAACGCCGTAAGGATTCTAAATTTGATAATTGGGTCATTGAAGAGGCAAATTGG
TTGACATTGTATGATGATATGCGTGAATATCTTCAAGGAGGTTTTGATGCTGTGATCTGT
CTTGGAAATTCATTTGCTCACATGCTCGATAATGACGGTGACCAAAATCAACAAAAGCAA
GCGATTAGAAACTTTGAAAGATGTTTGAAACCCGGTGGCCTCTTGCTTATTGATCACAGA
AATTATGATACAATCTGTAATGGAGGCAGTGCACCTAGTAAATCGATCTATTATAATAGT
CAACACATGACAGATATTAAAACATCAGTTCTCTATGTCGGTGGAAAACCGAATATAGTT
ACACTTGATTATTTAATCTCGACTGATGAGGGAATAAGATTAAGTTATTATCCACATCAG
TTGGAAGTTTTCAAGAAAATTTTAAAAGAAATCTTTGGTTATGGATGCTATCATGAAATT
TTTGGAGATTTTAAGGAAATCAATTCTAATGATACCCCTGCTTTTTATATCCATGTTATC
GAAAAGTCTAAATAA

>g9452.t12 Gene=g9452 Length=284
MPESEQTMFMRSNGISAEGTRDQYADGKAAKVWEIFIGDKKSRTKNYCDFLVNLLRNRGC
RRILDVACGTGVDSIMLVEEGFEVVSCDASDKMLKYALKERWERRKDSKFDNWVIEEANW
LTLYDDMREYLQGGFDAVICLGNSFAHMLDNDGDQNQQKQAIRNFERCLKPGGLLLIDHR
NYDTICNGGSAPSKSIYYNSQHMTDIKTSVLYVGGKPNIVTLDYLISTDEGIRLSYYPHQ
LEVFKKILKEIFGYGCYHEIFGDFKEINSNDTPAFYIHVIEKSK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g9452.t12 CDD cd02440 AdoMet_MTases 62 177 5.92692E-14
6 g9452.t12 Coils Coil Coil 280 284 -
4 g9452.t12 Gene3D G3DSA:3.30.46.10 - 22 237 4.0E-127
5 g9452.t12 Gene3D G3DSA:3.40.50.150 Vaccinia Virus protein VP39 37 282 4.0E-127
2 g9452.t12 PANTHER PTHR16458 GLYCINE N-METHYLTRANSFERASE 9 282 2.9E-122
7 g9452.t12 PIRSF PIRSF000385 Gly_N-mtase 4 284 6.6E-135
1 g9452.t12 Pfam PF13649 Methyltransferase domain 63 173 1.6E-13
9 g9452.t12 ProSiteProfiles PS51600 Glycine N-methyltransferase (EC 2.1.1.20 and EC 2.1.1.156) family profile. 1 284 134.455
3 g9452.t12 SUPERFAMILY SSF53335 S-adenosyl-L-methionine-dependent methyltransferases 11 261 4.37E-38

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

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