General information for g5772.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Glycine dehydrogenase (decarboxylating), mitochondrial.
Parent gene
- The parent gene g5772 is located on chr_2: 11844985..11846408 (- 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_2 | g5772 | g5772.t2 | TTS | g5772.t2 | 11842340 | 11842340 |
| chr_2 | g5772 | g5772.t2 | isoform | g5772.t2 | 11842397 | 11843272 |
| chr_2 | g5772 | g5772.t2 | exon | g5772.t2.exon1 | 11842397 | 11842513 |
| chr_2 | g5772 | g5772.t2 | cds | g5772.t2.CDS1 | 11842397 | 11842513 |
| chr_2 | g5772 | g5772.t2 | exon | g5772.t2.exon2 | 11842576 | 11843052 |
| chr_2 | g5772 | g5772.t2 | cds | g5772.t2.CDS2 | 11842576 | 11843052 |
| chr_2 | g5772 | g5772.t2 | exon | g5772.t2.exon3 | 11843109 | 11843272 |
| chr_2 | g5772 | g5772.t2 | cds | g5772.t2.CDS3 | 11843109 | 11843129 |
| chr_2 | g5772 | g5772.t2 | TSS | g5772.t2 | NA | NA |
Sequences
>g5772.t2 Gene=g5772 Length=758
GTGGGGGTCCGGGTTGTGGTCCAATTGGTGTTAAAAAACATTTAGCTCCATTTTTACCAT
CACATCCAGTCGTAGATGTTTTTCAAGAAAGTGAAGTCAACAAAAGCTTTGGAACAATTT
CAGCAGCACCTTATGGAAGTTCAATGATTTTACCAATTTCTTGGGCTTATATAAAATTAA
TGGGAGGAAGAGGTCTTCGCAGAGCAACGCAAGTTGCAATTTTAAATGCCAATTATATGT
CAAAGAAACTCGAGGGTCATTACAAAACACTTTATCGAGATCCATCATCAAACTTAGCTG
CGCACGAATTTATTCTTGACATTCGTGAATTCAAAAAAACGGCAAATATTGAAGCAGTTG
ATATCGCAAAACGTCTAATGGATTATGGTTTTCACGCGCCTACAATGTCCTGGCCGGTTG
CTGGGACTTTAATGATAGAACCAACAGAATCAGAAGATAAGGAAGAGCTTGACCGATTTT
GTGAAGCTATGATGACAATCCGTGAGGAAATAAGAGACATTGAAGAGGGCAGAATGGACA
AGAAGATTAATCCATTGAAAATGTCTCCACATACACAATTTCAAGTAGTTAACACTGAAT
GGAATAGACCATACACAAGAGAGCAAGCAGCTTTTCCTGCACCATTTGTGCGTCCTGAAA
CGAAAGTGTGGCCAACTGTTGCGAGAATAGATGATGCATATGGTGATAAGCATTTAGTGT
GTACATGTCCTCCAATATTACCAGATTTATATACTTAA
>g5772.t2 Gene=g5772 Length=204
MILPISWAYIKLMGGRGLRRATQVAILNANYMSKKLEGHYKTLYRDPSSNLAAHEFILDI
REFKKTANIEAVDIAKRLMDYGFHAPTMSWPVAGTLMIEPTESEDKEELDRFCEAMMTIR
EEIRDIEEGRMDKKINPLKMSPHTQFQVVNTEWNRPYTREQAAFPAPFVRPETKVWPTVA
RIDDAYGDKHLVCTCPPILPDLYT
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 3 | g5772.t2 | Gene3D | G3DSA:3.90.1150.10 | Aspartate Aminotransferase | 8 | 144 | 0 |
| 1 | g5772.t2 | PANTHER | PTHR11773 | GLYCINE DEHYDROGENASE, DECARBOXYLATING | 2 | 198 | 0 |
| 2 | g5772.t2 | SUPERFAMILY | SSF53383 | PLP-dependent transferases | 3 | 197 | 0 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5772/g5772.t2; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5772.t2.fa.iupred3.txt does not exist
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0006546 | glycine catabolic process | BP |
| GO:0003824 | catalytic activity | MF |
| GO:0055114 | NA | NA |
| GO:0004375 | glycine dehydrogenase (decarboxylating) 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