Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative 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.t5 isoform g9452.t5 3145471 3146958
chr_1 g9452 g9452.t5 exon g9452.t5.exon1 3145471 3146958
chr_1 g9452 g9452.t5 TTS g9452.t5 3145474 3145474
chr_1 g9452 g9452.t5 cds g9452.t5.CDS1 3146602 3146958
chr_1 g9452 g9452.t5 TSS g9452.t5 3147055 3147055

Sequences

>g9452.t5 Gene=g9452 Length=1488
ATGCCAGAATCTGAACAAACAATGTTTATGAGGTCAAATGGAATTTCTGCAGAAGGCACA
AGGGATCAATATGCAGATGGAAAAGCAGCGAAAGTTTGGGAAATTTTTATTGGCGATAAA
AAATCGAGAACAAAAAATTATTGTGATTTTCTTGTAAATTTATTGCGTAATCGTGGATGT
CGTAGAATCCTTGATGTGGCTTGTGGCACAGGCGTTGATTCTATAATGCTCGTTGAAGAA
GGTTTTGAAGTAGTTTCATGTGATGCTTCTGATAAAATGCTCAAGTATGCACTTAAAGAA
CGTTGGGAACGCCGTAAGGATTCTAAATTTGATAATTGGGGTAAGTTTGATAATTAAAAT
TATTTCAAATAAAAATTATAAAATTGATAATGAATGACGCAGCAAAAAATAAAATTTCAC
CCTCAGACATTATGACAGACAAAACAACACGAAAGTCATTTACTGATAACAAATCTTTCT
TTTCTTTTTTTGCATAGTCATTGAAGAGGCAAATTGGTTGACATTGTATGATGATATGCG
TGAATATCTTCAAGGAGGTTTTGATGCTGTGATCTGTCTTGGAAATTCATTTGCTCACAT
GCTCGATAATGACGGTGACCAAAATCAACAAAAGCAAGCGATTAGAAACTTTGAAAGATG
TTTGAAACCCGGTGGCCTCTTGCTTATTGATCACAGAAATTATGATACAATCTGTAATGG
AGGCAGTGCACCTAGTAAATCGATCTATTATAATGTAAGTAAAATTTTTACACCACAAAT
TGACTTTGAACTTGAGAACAGTAAAAGTTTATTAGTTTGTGCTACCGCTGTCGAATGCAT
ATACAAATTGCACGTTCAGCTGATTAATTTACGTATTTTTTTCACTATAGAGTCAACACA
TGACAGATATTAAAACATCAGTTCTCTATGTCGGTGGAAAACCGAATATAGTTACACTTG
ATTATTTAATCTCGACTGATGAGGGAATAAGGTATGAAGTCTGTTTGATTTTATAATTTT
AATAAAAATAAAATTTATTTCCTGTTTTTCAGTGAATTCAGATTAAGTTATTATCCACAT
CAGTTGGAAGTTTTCAAGAAAATTTTAAAAGAAATCTTTGGTTATGGATGCTATCATGAA
ATTTTTGGAGATTTTAAGGAAATCAATTCTAATGATACCCCTGCTTTTTATATCCATGTT
ATCGAAAAGTCTAAATAAATTATGTTGTTGTCGTAAGAAAATTTGCTGCTGCTGTCGTAA
AGTTAAGAGAAAATCAAAAAATTATTTAGGAAGTAATGTTGTTAGTGATAATATTAATTT
TGTGAGAAAAAATACTAAAAATGTTGAGTTAATTAATTTTAAGACATTATTAAATAATGA
CGAGAGATCAAATGACTATTCAGCTGCTAAACTTTAAATATTGTATATTGTATCAAAATT
TTAGAAATAAATAAAGGTTATTGATAGTGTATAGATTTTATAATGAAT

>g9452.t5 Gene=g9452 Length=118
MPESEQTMFMRSNGISAEGTRDQYADGKAAKVWEIFIGDKKSRTKNYCDFLVNLLRNRGC
RRILDVACGTGVDSIMLVEEGFEVVSCDASDKMLKYALKERWERRKDSKFDNWGKFDN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g9452.t5 CDD cd02440 AdoMet_MTases 62 107 7.0e-07
4 g9452.t5 Gene3D G3DSA:3.30.46.10 - 21 44 5.3e-05
5 g9452.t5 Gene3D G3DSA:3.40.50.150 Vaccinia Virus protein VP39 45 117 0.0e+00
2 g9452.t5 PANTHER PTHR16458 GLYCINE N-METHYLTRANSFERASE 8 113 0.0e+00
1 g9452.t5 Pfam PF13649 Methyltransferase domain 63 101 6.0e-07
3 g9452.t5 SUPERFAMILY SSF53335 S-adenosyl-L-methionine-dependent methyltransferases 11 105 0.0e+00

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