General information for g2506.t26
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.t26 | TSS | g2506.t26 | 18328889 | 18328889 |
| chr_3 | g2506 | g2506.t26 | isoform | g2506.t26 | 18329132 | 18333028 |
| chr_3 | g2506 | g2506.t26 | exon | g2506.t26.exon1 | 18329132 | 18329255 |
| chr_3 | g2506 | g2506.t26 | cds | g2506.t26.CDS1 | 18329132 | 18329255 |
| chr_3 | g2506 | g2506.t26 | exon | g2506.t26.exon2 | 18330039 | 18330116 |
| chr_3 | g2506 | g2506.t26 | cds | g2506.t26.CDS2 | 18330039 | 18330116 |
| chr_3 | g2506 | g2506.t26 | exon | g2506.t26.exon3 | 18330192 | 18330314 |
| chr_3 | g2506 | g2506.t26 | cds | g2506.t26.CDS3 | 18330192 | 18330314 |
| chr_3 | g2506 | g2506.t26 | exon | g2506.t26.exon4 | 18331196 | 18331308 |
| chr_3 | g2506 | g2506.t26 | cds | g2506.t26.CDS4 | 18331196 | 18331308 |
| chr_3 | g2506 | g2506.t26 | exon | g2506.t26.exon5 | 18331502 | 18331645 |
| chr_3 | g2506 | g2506.t26 | cds | g2506.t26.CDS5 | 18331502 | 18331645 |
| chr_3 | g2506 | g2506.t26 | exon | g2506.t26.exon6 | 18331879 | 18332407 |
| chr_3 | g2506 | g2506.t26 | cds | g2506.t26.CDS6 | 18331879 | 18332076 |
| chr_3 | g2506 | g2506.t26 | exon | g2506.t26.exon7 | 18332477 | 18333028 |
| chr_3 | g2506 | g2506.t26 | TTS | g2506.t26 | 18333629 | 18333629 |
Sequences
>g2506.t26 Gene=g2506 Length=1663
ATGCCAGAAACAACGACTAACATGAATGGTTATTCTAATGGACACAGTATTCACAATGGA
TATGAGCTTGAAGACAATTCTTCATTTCTCTTTACTTCAGAATCTGTCGGCGAAGGACAT
CCAGATAAAATGTGTGACCAAATTTCTGATGCTATCTTAGATGCTCATTTGAAACAAGAC
CCGAATGCAAAAGTTGCTTGTGAAACTGTCAGCAAGACTGGTATGATCCTCTTGTGCGGG
GAGATTACATCAAAAGCAAACGTCGACTATCAGAAAGTGGTTCGTGATACAGTCAAACAC
ATTGGATATGATGACTCCTCAAAGGGTTTTGATTACAAAACTTGTAGTCTTATGGTATGT
CTTGAGCAGCAAAGTCCAAATATTGCTGACGGGGTGCATGTTAATCGTAATGTCGAGGAT
ATTGGAGCTGGCGATCAGGGTTTGATGTTTGGATATGCTACAGACGAAACTGAAGAATGC
ATGCCTCTTACAGTCGTCTTAGCACATCGTTTGAACCAAAAGATTGCTGAACTTCGCAGA
TCTGGAGTTTTGAGCTGGGCACGTCCAGATTCTAAAACACAACAGAATACATTTTCCAAA
AAGGAGCTTGCATTCCAAAGCGAGTTCACACGGTTGTCGTCTCTTTACAGCATTCTGAAA
AGGTTACATTGGAAGAATTACGAAAAGAGATTACTGAAAAAGTTGTTCGTGTCGTCATTC
CCGAAAAGTATTTGGATAATGAAACTATTGTTCACATCAATCCATGTGGAAATTTTGTAA
TTGGTGGACCACAAGGTGATGCAGGTTTAACTGGACGCAAAATTATTGTCGATACCTATG
GCGGATGGGGAGCTCATGGTGGTGGAGCATTTTCAGGAAAGGACTTTACAAAGGTCGATC
GCTCTGCTGCTTATGCTGCTCGTTGGGTTGCAAAATCATTGGTCAAAGCTGGTGTTTGCA
GAAGATGCTTGGTTCAAGTAAGCTACGCCATTGGTGTCGCTGAACCATTGTCAATAACAG
TCTTTGACTATGGAACATCAAGTTATACACAAAAACAACTTTTGGAAATCATTAAAAAGA
ACTTTGATCTTCGCCCAGGCAAAATTGTTAATGACTTAAATTTGCGCACACCATTTTACC
AACAAACAAGCACATATGGTCATTTTGGTCGTGAAGGTTTTCCATGGGAAAAACCAAAGA
CATTGATTCTTGAATGACTGCCGCAACTTGTTGTTTCAGATGCATCCGAAAGTGATGATG
AAAATCCCAATTGTTCTAAAAAAATTAAATTAGCATAAGCCCACAAACAACATACTAAAA
ATTTTAAAATATGGTTCTTAAAAATTCCCCACATGACGTTTAAAAAAATTAACATAGGAC
GTGACAAAAAGTTTAAATTCCTTTTAGTTTTATCCTCTATAAAAATAGTCCATTTTCATG
GGATTTTTGAATATTTTTCTTTATCGAGAAATCTACAAACATAACTTTTTAGAAATACTT
TTTTACTATCTTTAGTTGTTTAAGTAAATGTTCTACTACCTAACTCTTTTTTTTTGTTAG
TAGTTGCTTCTCAAAAAAACTTATAACTTTATCATAAAAGCTATTACATGATTAATGAGA
AGATAAAAAAAATCAAAAAACCTTTGCTATTAGAGAAAGAGTG
>g2506.t26 Gene=g2506 Length=259
MPETTTNMNGYSNGHSIHNGYELEDNSSFLFTSESVGEGHPDKMCDQISDAILDAHLKQD
PNAKVACETVSKTGMILLCGEITSKANVDYQKVVRDTVKHIGYDDSSKGFDYKTCSLMVC
LEQQSPNIADGVHVNRNVEDIGAGDQGLMFGYATDETEECMPLTVVLAHRLNQKIAELRR
SGVLSWARPDSKTQQNTFSKKELAFQSEFTRLSSLYSILKRLHWKNYEKRLLKKLFVSSF
PKSIWIMKLLFTSIHVEIL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g2506.t26 | Gene3D | G3DSA:3.30.300.10 | - | 30 | 232 | 5.9E-74 |
| 8 | g2506.t26 | Gene3D | G3DSA:3.30.300.10 | - | 36 | 139 | 5.9E-74 |
| 9 | g2506.t26 | Gene3D | G3DSA:3.30.300.10 | - | 140 | 162 | 5.9E-74 |
| 3 | g2506.t26 | PANTHER | PTHR11964:SF11 | S-ADENOSYLMETHIONINE SYNTHASE ISOFORM TYPE-1 | 18 | 197 | 9.4E-105 |
| 4 | g2506.t26 | PANTHER | PTHR11964 | S-ADENOSYLMETHIONINE SYNTHETASE | 18 | 197 | 9.4E-105 |
| 2 | g2506.t26 | Pfam | PF00438 | S-adenosylmethionine synthetase, N-terminal domain | 29 | 126 | 1.7E-43 |
| 1 | g2506.t26 | Pfam | PF02772 | S-adenosylmethionine synthetase, central domain | 141 | 194 | 6.3E-23 |
| 7 | g2506.t26 | ProSitePatterns | PS00376 | S-adenosylmethionine synthase signature 1. | 142 | 152 | - |
| 5 | g2506.t26 | SUPERFAMILY | SSF55973 | S-adenosylmethionine synthetase | 28 | 135 | 1.45E-47 |
| 6 | g2506.t26 | SUPERFAMILY | SSF55973 | S-adenosylmethionine synthetase | 136 | 194 | 1.22E-24 |
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