General information for g2506.t34
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.t34 | isoform | g2506.t34 | 18330255 | 18333574 |
| chr_3 | g2506 | g2506.t34 | exon | g2506.t34.exon1 | 18330255 | 18330318 |
| chr_3 | g2506 | g2506.t34 | cds | g2506.t34.CDS1 | 18330300 | 18330318 |
| chr_3 | g2506 | g2506.t34 | exon | g2506.t34.exon2 | 18330555 | 18330667 |
| chr_3 | g2506 | g2506.t34 | cds | g2506.t34.CDS2 | 18330555 | 18330667 |
| chr_3 | g2506 | g2506.t34 | exon | g2506.t34.exon3 | 18331502 | 18331645 |
| chr_3 | g2506 | g2506.t34 | cds | g2506.t34.CDS3 | 18331502 | 18331645 |
| chr_3 | g2506 | g2506.t34 | exon | g2506.t34.exon4 | 18331872 | 18332407 |
| chr_3 | g2506 | g2506.t34 | cds | g2506.t34.CDS4 | 18331872 | 18332407 |
| chr_3 | g2506 | g2506.t34 | exon | g2506.t34.exon5 | 18332477 | 18333574 |
| chr_3 | g2506 | g2506.t34 | cds | g2506.t34.CDS5 | 18332477 | 18332582 |
| chr_3 | g2506 | g2506.t34 | TTS | g2506.t34 | 18333629 | 18333629 |
| chr_3 | g2506 | g2506.t34 | TSS | g2506.t34 | NA | NA |
Sequences
>g2506.t34 Gene=g2506 Length=1955
ACTATCAGAAAGTGGTTCGTGATACAGTCAAACACATTGGATATGATGACTCCTCAAAGG
GTAAGCTTCGACTGGAAGACTCTTAACTTGTTAGTGGCAATTGAACAGCAATCGCCTGAT
ATCGCTCAAGGAGTACACTTAAATCGCGAAGAATATGATGTAGGAGCCGGTGATCAGGGT
TTGATGTTTGGATATGCTACAGACGAAACTGAAGAATGCATGCCTCTTACAGTCGTCTTA
GCACATCGTTTGAACCAAAAGATTGCTGAACTTCGCAGATCTGGAGTTTTGAGCTGGGCA
CGTCCAGATTCTAAAACACAAGTTACAGCAGAATACATTTTCCAAAAAGGAGCTTGCATT
CCAAAGCGAGTTCACACGGTTGTCGTCTCTTTACAGCATTCTGAAAAGGTTACATTGGAA
GAATTACGAAAAGAGATTACTGAAAAAGTTGTTCGTGTCGTCATTCCCGAAAAGTATTTG
GATAATGAAACTATTGTTCACATCAATCCATGTGGAAATTTTGTAATTGGTGGACCACAA
GGTGATGCAGGTTTAACTGGACGCAAAATTATTGTCGATACCTATGGCGGATGGGGAGCT
CATGGTGGTGGAGCATTTTCAGGAAAGGACTTTACAAAGGTCGATCGCTCTGCTGCTTAT
GCTGCTCGTTGGGTTGCAAAATCATTGGTCAAAGCTGGTGTTTGCAGAAGATGCTTGGTT
CAAGTAAGCTACGCCATTGGTGTCGCTGAACCATTGTCAATAACAGTCTTTGACTATGGA
ACATCAAGTTATACACAAAAACAACTTTTGGAAATCATTAAAAAGAACTTTGATCTTCGC
CCAGGCAAAATTGTTAATGACTTAAATTTGCGCACACCATTTTACCAACAAACAAGCACA
TATGGTCATTTTGGTCGTGAAGGTTTTCCATGGGAAAAACCAAAGACATTGATTCTTGAA
TGACTGCCGCAACTTGTTGTTTCAGATGCATCCGAAAGTGATGATGAAAATCCCAATTGT
TCTAAAAAAATTAAATTAGCATAAGCCCACAAACAACATACTAAAAATTTTAAAATATGG
TTCTTAAAAATTCCCCACATGACGTTTAAAAAAATTAACATAGGACGTGACAAAAAGTTT
AAATTCCTTTTAGTTTTATCCTCTATAAAAATAGTCCATTTTCATGGGATTTTTGAATAT
TTTTCTTTATCGAGAAATCTACAAACATAACTTTTTAGAAATACTTTTTTACTATCTTTA
GTTGTTTAAGTAAATGTTCTACTACCTAACTCTTTTTTTTTGTTAGTAGTTGCTTCTCAA
AAAAACTTATAACTTTATCATAAAAGCTATTACATGATTAATGAGAAGATAAAAAAAATC
AAAAAACCTTTGCTATTAGAGAAAGAGTGCTAGAATGATTTAGTCGAATCACGGCACCGA
GTATCGTCGCAAAAAAAAAATAAATTGTAAAATTATCATTGCTCGATGTCGCAATACTTT
CTTCATACATTATGACTCAGTGCTAATTGATTCTCGAGAGACTTTCATGCGTTCTTTTTT
GGCATGTAATATTATGTCTCAATAGTGACAATTTCGCTCTCTATTAATTGTAATAAATGA
AAATCTCACTATTGAGACTTGGACCATGAAATGCTTTCCTGATTTTAAACTGTGATTACG
ATCTTTGAAGAAAGTCTTGTGTTGTGTTTCTGACTGGAAAATGGAAAAGCGCGTTTGTCA
AAAACACACCGGTTCACAAATCATTTGAAAAACATTTGCAATGTGTGAAGATTTTTCTTA
ATAAACCTTAGATTATTAGGTAGATAAAGAAATAAAAGTTGTAAGAAGGATTAGTAAGAA
TAGAAGCATTTGTCTGCACTTTAAATTCTCTAGCATTGGAAACAAAAAAATGGAATGTAT
TGATTTTTCTTTGAATAAATAGTTATAAACGAAAA
>g2506.t34 Gene=g2506 Length=305
MTPQRVSFDWKTLNLLVAIEQQSPDIAQGVHLNREEYDVGAGDQGLMFGYATDETEECMP
LTVVLAHRLNQKIAELRRSGVLSWARPDSKTQVTAEYIFQKGACIPKRVHTVVVSLQHSE
KVTLEELRKEITEKVVRVVIPEKYLDNETIVHINPCGNFVIGGPQGDAGLTGRKIIVDTY
GGWGAHGGGAFSGKDFTKVDRSAAYAARWVAKSLVKAGVCRRCLVQVSYAIGVAEPLSIT
VFDYGTSSYTQKQLLEIIKKNFDLRPGKIVNDLNLRTPFYQQTSTYGHFGREGFPWEKPK
TLILE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 13 | g2506.t34 | CDD | cd18079 | S-AdoMet_synt | 8 | 300 | 0.0 |
| 10 | g2506.t34 | Gene3D | G3DSA:3.30.300.10 | - | 1 | 53 | 9.0E-8 |
| 9 | g2506.t34 | Gene3D | G3DSA:3.30.300.10 | - | 54 | 161 | 8.5E-41 |
| 11 | g2506.t34 | Gene3D | G3DSA:3.30.300.10 | - | 179 | 305 | 6.9E-53 |
| 3 | g2506.t34 | PANTHER | PTHR11964:SF11 | S-ADENOSYLMETHIONINE SYNTHASE ISOFORM TYPE-1 | 7 | 303 | 2.1E-161 |
| 4 | g2506.t34 | PANTHER | PTHR11964 | S-ADENOSYLMETHIONINE SYNTHETASE | 7 | 303 | 2.1E-161 |
| 1 | g2506.t34 | Pfam | PF02772 | S-adenosylmethionine synthetase, central domain | 39 | 159 | 1.2E-44 |
| 2 | g2506.t34 | Pfam | PF02773 | S-adenosylmethionine synthetase, C-terminal domain | 161 | 298 | 3.4E-68 |
| 7 | g2506.t34 | ProSitePatterns | PS00376 | S-adenosylmethionine synthase signature 1. | 40 | 50 | - |
| 8 | g2506.t34 | ProSitePatterns | PS00377 | S-adenosylmethionine synthase signature 2. | 187 | 195 | - |
| 5 | g2506.t34 | SUPERFAMILY | SSF55973 | S-adenosylmethionine synthetase | 38 | 160 | 2.06E-49 |
| 6 | g2506.t34 | SUPERFAMILY | SSF55973 | S-adenosylmethionine synthetase | 161 | 301 | 2.12E-66 |
| 12 | g2506.t34 | TIGRFAM | TIGR01034 | metK: methionine adenosyltransferase | 5 | 302 | 7.7E-136 |
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