General information for g14646.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 g14646 is located on chr_4: 1695078..1696196 (+ 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_4 | g14646 | g14646.t2 | TSS | g14646.t2 | 1694995 | 1694995 |
| chr_4 | g14646 | g14646.t2 | isoform | g14646.t2 | 1695078 | 1696196 |
| chr_4 | g14646 | g14646.t2 | exon | g14646.t2.exon1 | 1695078 | 1695408 |
| chr_4 | g14646 | g14646.t2 | cds | g14646.t2.CDS1 | 1695078 | 1695408 |
| chr_4 | g14646 | g14646.t2 | exon | g14646.t2.exon2 | 1695542 | 1695790 |
| chr_4 | g14646 | g14646.t2 | cds | g14646.t2.CDS2 | 1695542 | 1695790 |
| chr_4 | g14646 | g14646.t2 | exon | g14646.t2.exon3 | 1695927 | 1696196 |
| chr_4 | g14646 | g14646.t2 | cds | g14646.t2.CDS3 | 1695927 | 1695949 |
| chr_4 | g14646 | g14646.t2 | TTS | g14646.t2 | 1696215 | 1696215 |
Sequences
>g14646.t2 Gene=g14646 Length=850
ATGCCAGAATCTGAAAAAACAATGTTTACAAGTTCAACTGGAATTCCTGTAAGAGATCAA
TATGCAGATGGAAAAGCAGCCAAAGTTTGGGAAATTTTTATTGGCGATAAAAAATCAAGA
ACAAAGATTTATTGTGATTTTCTCGTGAATTTATTGCGTAGTCATGGATGTCATAGAATA
CTTGATGTAGCCTGCGGTACAGGTATTGACTCAATATTGCTTGTTGAAAAAGGTTTTGAA
GTAGTTTCATGTGATGCTTCTGATAAAATGCTTAAGTATGCAATAAAAGAACGTTGGAAT
CGACGAAAAGATTCTAGGTTTGATAATTGGATCATTGAAGAAGCAAACTGGTTAACATTG
AATGATGATATGCGCGAATATCTTCAAGGAGGCTTCGATGCTGTGATTTGTCTTGGAAAT
TCTTTTGGTCATATACTTGATAATTGTGAGCAGAAGCAAGCAATTAGAAATTTCGAAAGG
TGTTTGAAAACTGGAGGCCTTTTGATTATTGATCATAGAAATTATGACATAATTTGTAAT
GGTGGAAATGCTCCTAGCAAATCTATTTATTACAACGTGAAGTCAATACATGACAGATAT
TAAAACATCACTTCTCTATGTTAATGGAAAACCGACTAAAGTCACACTTGATTGTTTAAT
TACAACTGATGATGGAATAAAGTATGAATTTGGTTTAAGTTCTTATCCACATCAACTGGA
AGAATTCAAGAAAATTTTAAAGGAAATCTTTGGTTATGGATGTTATCATAAAATTTTAGG
TGATTTTAAGGAAATTAATTCTAATTATACTCCTGGCTTTTATATTCATGTTATTGAAAA
GTCTAAATAA
>g14646.t2 Gene=g14646 Length=200
MPESEKTMFTSSTGIPVRDQYADGKAAKVWEIFIGDKKSRTKIYCDFLVNLLRSHGCHRI
LDVACGTGIDSILLVEKGFEVVSCDASDKMLKYAIKERWNRRKDSRFDNWIIEEANWLTL
NDDMREYLQGGFDAVICLGNSFGHILDNCEQKQAIRNFERCLKTGGLLIIDHRNYDIICN
GGNAPSKSIYYNVKSIHDRY
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g14646.t2 | CDD | cd02440 | AdoMet_MTases | 59 | 170 | 0.000 |
| 4 | g14646.t2 | Gene3D | G3DSA:3.30.46.10 | - | 19 | 198 | 0.000 |
| 5 | g14646.t2 | Gene3D | G3DSA:3.40.50.150 | Vaccinia Virus protein VP39 | 34 | 173 | 0.000 |
| 2 | g14646.t2 | PANTHER | PTHR16458 | GLYCINE N-METHYLTRANSFERASE | 17 | 198 | 0.000 |
| 1 | g14646.t2 | Pfam | PF13649 | Methyltransferase domain | 60 | 166 | 0.000 |
| 6 | g14646.t2 | ProSiteProfiles | PS51600 | Glycine N-methyltransferase (EC 2.1.1.20 and EC 2.1.1.156) family profile. | 1 | 200 | 94.597 |
| 3 | g14646.t2 | SUPERFAMILY | SSF53335 | S-adenosyl-L-methionine-dependent methyltransferases | 19 | 191 | 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