General information for g2569.t30
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Homocysteine S-methyltransferase.
Parent gene
- The parent gene g2569 is located on chr_3: 18787120..18790735 (- 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 | g2569 | g2569.t30 | TTS | g2569.t30 | 18786001 | 18786001 |
| chr_3 | g2569 | g2569.t30 | isoform | g2569.t30 | 18786093 | 18787590 |
| chr_3 | g2569 | g2569.t30 | exon | g2569.t30.exon1 | 18786093 | 18786265 |
| chr_3 | g2569 | g2569.t30 | cds | g2569.t30.CDS1 | 18786093 | 18786265 |
| chr_3 | g2569 | g2569.t30 | exon | g2569.t30.exon2 | 18786332 | 18786533 |
| chr_3 | g2569 | g2569.t30 | cds | g2569.t30.CDS2 | 18786332 | 18786533 |
| chr_3 | g2569 | g2569.t30 | exon | g2569.t30.exon3 | 18786923 | 18787000 |
| chr_3 | g2569 | g2569.t30 | cds | g2569.t30.CDS3 | 18786923 | 18787000 |
| chr_3 | g2569 | g2569.t30 | exon | g2569.t30.exon4 | 18787056 | 18787204 |
| chr_3 | g2569 | g2569.t30 | exon | g2569.t30.exon5 | 18787332 | 18787590 |
| chr_3 | g2569 | g2569.t30 | TSS | g2569.t30 | NA | NA |
Sequences
>g2569.t30 Gene=g2569 Length=861
AGATTTAATGCAGTTAATCCCGAAGCTGTCATTCAAAGTCATTTAGATTTTCTTAATGCA
GGAGCTGAAATAATTTTGACAAACACCTATCAAGCTAGTATTGAAGGATATCAAACTTAT
TTGGATCTAGATTATCATGGAAGTTATGAGCTTATTAAGTCAACAGTGAAGCTAGCTCAT
ATTGCGCGTGACAAATTTTTATCTTCGCATATCAACCATGTGAAAAAACCTTTAATTTTT
GCATCAATCGGTCCTTATGGTGCGCATTTACATGATGGAAGTGAATATACTGGAAGTTAT
GAAAAAAGAGTGTCACCTGCAGCAATCAAAAAATGGCACAAAGTGAGAATCGATGCATGT
GTTGAATCGGGGGTTGATGGATTAGCAATTGAAACTATTCCATGTTTGATGGAAGCAAAT
GCATTAGTTGATCTCGTTCTCACGGAATATCCAAATTTAAAATTTTGGATATCTTTCCAA
TGCAAGAACGGTGAAGTAATTGCTAATGGACAAAGATTTTCTGACTGCATTTTATCTATT
TGGAATCAAGTAGAAGCAGCTAAACGTCCAGAAAATTTAGTTGCAGTTGGAATTAATTGT
ATAAATCCAAGCTTTGTTTCACCACTTTTTTCTGAAATTGAGAAAAATTTGTGCAATTTC
AATGTACCGCTAGTCGTGTACCCAAACAGTGAAGTTTATACTGTTGAAGAAGGTTGGCAT
GGGAAAAATGACTGCATTCCATTAGAGAATTATATTGAAGAATGGGTCAAATTAGGAGCA
AAATATATTGGAGGATGTTGTCGTACAAATGCTCATGATATTGAGAAAATCAAAAATAAA
ATTGAGGCTCTAAAAAATTAA
>g2569.t30 Gene=g2569 Length=150
MEANALVDLVLTEYPNLKFWISFQCKNGEVIANGQRFSDCILSIWNQVEAAKRPENLVAV
GINCINPSFVSPLFSEIEKNLCNFNVPLVVYPNSEVYTVEEGWHGKNDCIPLENYIEEWV
KLGAKYIGGCCRTNAHDIEKIKNKIEALKN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g2569.t30 | Gene3D | G3DSA:3.20.20.330 | - | 1 | 145 | 0.000 |
| 2 | g2569.t30 | PANTHER | PTHR46015 | ZGC:172121 | 2 | 147 | 0.000 |
| 3 | g2569.t30 | PANTHER | PTHR46015:SF1 | ZGC:172121 | 2 | 147 | 0.000 |
| 1 | g2569.t30 | Pfam | PF02574 | Homocysteine S-methyltransferase | 2 | 144 | 0.000 |
| 6 | g2569.t30 | ProSiteProfiles | PS50970 | Homocysteine-binding domain profile. | 1 | 145 | 16.462 |
| 4 | g2569.t30 | SUPERFAMILY | SSF82282 | Homocysteine S-methyltransferase | 5 | 148 | 0.000 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
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