General information for g2506.t36
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as S-adenosylmethionine synthase.
Parent gene
- The parent gene g2506 is located on chr_3: 18332519..18333574 (+ 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_3 | g2506 | g2506.t36 | isoform | g2506.t36 | 18330555 | 18333128 |
| chr_3 | g2506 | g2506.t36 | exon | g2506.t36.exon1 | 18330555 | 18330667 |
| chr_3 | g2506 | g2506.t36 | exon | g2506.t36.exon2 | 18331502 | 18331645 |
| chr_3 | g2506 | g2506.t36 | cds | g2506.t36.CDS1 | 18331508 | 18331645 |
| chr_3 | g2506 | g2506.t36 | exon | g2506.t36.exon3 | 18331872 | 18332407 |
| chr_3 | g2506 | g2506.t36 | cds | g2506.t36.CDS2 | 18331872 | 18332407 |
| chr_3 | g2506 | g2506.t36 | exon | g2506.t36.exon4 | 18332477 | 18333128 |
| chr_3 | g2506 | g2506.t36 | cds | g2506.t36.CDS3 | 18332477 | 18332582 |
| chr_3 | g2506 | g2506.t36 | TTS | g2506.t36 | 18333629 | 18333629 |
| chr_3 | g2506 | g2506.t36 | TSS | g2506.t36 | NA | NA |
Sequences
>g2506.t36 Gene=g2506 Length=1445
GCTTCGACTGGAAGACTCTTAACTTGTTAGTGGCAATTGAACAGCAATCGCCTGATATCG
CTCAAGGAGTACACTTAAATCGCGAAGAATATGATGTAGGAGCCGGTGATCAGGGTTTGA
TGTTTGGATATGCTACAGACGAAACTGAAGAATGCATGCCTCTTACAGTCGTCTTAGCAC
ATCGTTTGAACCAAAAGATTGCTGAACTTCGCAGATCTGGAGTTTTGAGCTGGGCACGTC
CAGATTCTAAAACACAAGTTACAGCAGAATACATTTTCCAAAAAGGAGCTTGCATTCCAA
AGCGAGTTCACACGGTTGTCGTCTCTTTACAGCATTCTGAAAAGGTTACATTGGAAGAAT
TACGAAAAGAGATTACTGAAAAAGTTGTTCGTGTCGTCATTCCCGAAAAGTATTTGGATA
ATGAAACTATTGTTCACATCAATCCATGTGGAAATTTTGTAATTGGTGGACCACAAGGTG
ATGCAGGTTTAACTGGACGCAAAATTATTGTCGATACCTATGGCGGATGGGGAGCTCATG
GTGGTGGAGCATTTTCAGGAAAGGACTTTACAAAGGTCGATCGCTCTGCTGCTTATGCTG
CTCGTTGGGTTGCAAAATCATTGGTCAAAGCTGGTGTTTGCAGAAGATGCTTGGTTCAAG
TAAGCTACGCCATTGGTGTCGCTGAACCATTGTCAATAACAGTCTTTGACTATGGAACAT
CAAGTTATACACAAAAACAACTTTTGGAAATCATTAAAAAGAACTTTGATCTTCGCCCAG
GCAAAATTGTTAATGACTTAAATTTGCGCACACCATTTTACCAACAAACAAGCACATATG
GTCATTTTGGTCGTGAAGGTTTTCCATGGGAAAAACCAAAGACATTGATTCTTGAATGAC
TGCCGCAACTTGTTGTTTCAGATGCATCCGAAAGTGATGATGAAAATCCCAATTGTTCTA
AAAAAATTAAATTAGCATAAGCCCACAAACAACATACTAAAAATTTTAAAATATGGTTCT
TAAAAATTCCCCACATGACGTTTAAAAAAATTAACATAGGACGTGACAAAAAGTTTAAAT
TCCTTTTAGTTTTATCCTCTATAAAAATAGTCCATTTTCATGGGATTTTTGAATATTTTT
CTTTATCGAGAAATCTACAAACATAACTTTTTAGAAATACTTTTTTACTATCTTTAGTTG
TTTAAGTAAATGTTCTACTACCTAACTCTTTTTTTTTGTTAGTAGTTGCTTCTCAAAAAA
ACTTATAACTTTATCATAAAAGCTATTACATGATTAATGAGAAGATAAAAAAAATCAAAA
AACCTTTGCTATTAGAGAAAGAGTGCTAGAATGATTTAGTCGAATCACGGCACCGAGTAT
CGTCGCAAAAAAAAAATAAATTGTAAAATTATCATTGCTCGATGTCGCAATACTTTCTTC
ATACA
>g2506.t36 Gene=g2506 Length=259
MFGYATDETEECMPLTVVLAHRLNQKIAELRRSGVLSWARPDSKTQVTAEYIFQKGACIP
KRVHTVVVSLQHSEKVTLEELRKEITEKVVRVVIPEKYLDNETIVHINPCGNFVIGGPQG
DAGLTGRKIIVDTYGGWGAHGGGAFSGKDFTKVDRSAAYAARWVAKSLVKAGVCRRCLVQ
VSYAIGVAEPLSITVFDYGTSSYTQKQLLEIIKKNFDLRPGKIVNDLNLRTPFYQQTSTY
GHFGREGFPWEKPKTLILE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g2506.t36 | CDD | cd18079 | S-AdoMet_synt | 1 | 254 | 9.38842E-163 |
| 8 | g2506.t36 | Gene3D | G3DSA:3.30.300.10 | - | 1 | 115 | 2.8E-42 |
| 9 | g2506.t36 | Gene3D | G3DSA:3.30.300.10 | - | 133 | 259 | 4.7E-53 |
| 3 | g2506.t36 | PANTHER | PTHR11964:SF11 | S-ADENOSYLMETHIONINE SYNTHASE ISOFORM TYPE-1 | 1 | 257 | 5.7E-137 |
| 4 | g2506.t36 | PANTHER | PTHR11964 | S-ADENOSYLMETHIONINE SYNTHETASE | 1 | 257 | 5.7E-137 |
| 1 | g2506.t36 | Pfam | PF02772 | S-adenosylmethionine synthetase, central domain | 1 | 113 | 1.4E-38 |
| 2 | g2506.t36 | Pfam | PF02773 | S-adenosylmethionine synthetase, C-terminal domain | 115 | 252 | 2.2E-68 |
| 7 | g2506.t36 | ProSitePatterns | PS00377 | S-adenosylmethionine synthase signature 2. | 141 | 149 | - |
| 6 | g2506.t36 | SUPERFAMILY | SSF55973 | S-adenosylmethionine synthetase | 1 | 114 | 1.02E-42 |
| 5 | g2506.t36 | SUPERFAMILY | SSF55973 | S-adenosylmethionine synthetase | 115 | 255 | 1.37E-66 |
| 10 | g2506.t36 | TIGRFAM | TIGR01034 | metK: methionine adenosyltransferase | 1 | 256 | 4.8E-119 |
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:0005524 | ATP binding | MF |
| GO:0004478 | methionine adenosyltransferase activity | MF |
| GO:0006556 | S-adenosylmethionine biosynthetic process | BP |
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