General information for g3564.t18
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Glutamate dehydrogenase, mitochondrial.
Parent gene
- The parent gene g3564 is located on chr_3: 26458192..26459186 (+ 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 | g3564 | g3564.t18 | isoform | g3564.t18 | 26457628 | 26459186 |
| chr_3 | g3564 | g3564.t18 | exon | g3564.t18.exon1 | 26457628 | 26457818 |
| chr_3 | g3564 | g3564.t18 | exon | g3564.t18.exon2 | 26457879 | 26458188 |
| chr_3 | g3564 | g3564.t18 | cds | g3564.t18.CDS1 | 26457900 | 26458188 |
| chr_3 | g3564 | g3564.t18 | exon | g3564.t18.exon3 | 26458735 | 26458884 |
| chr_3 | g3564 | g3564.t18 | cds | g3564.t18.CDS2 | 26458735 | 26458884 |
| chr_3 | g3564 | g3564.t18 | exon | g3564.t18.exon4 | 26458946 | 26459072 |
| chr_3 | g3564 | g3564.t18 | cds | g3564.t18.CDS3 | 26458946 | 26459067 |
| chr_3 | g3564 | g3564.t18 | exon | g3564.t18.exon5 | 26459172 | 26459186 |
| chr_3 | g3564 | g3564.t18 | TTS | g3564.t18 | 26459449 | 26459449 |
| chr_3 | g3564 | g3564.t18 | TSS | g3564.t18 | NA | NA |
Sequences
>g3564.t18 Gene=g3564 Length=793
AGACATTTGTTGTGCAAGGTTTTGGTAATGTCGGTCTTCATACATGTCGCTATTTGACAC
GAGCTGGAGCTACATGCATTGGAATCATTGAACATGATGGATCAATTTATAATCCACAAG
GTATTGACCCCAAAGCACTCGAGGATTATAGAATTGAACACGGAACTATTGTTGGCTTTC
CAGGAGCTAAACCATATGAAGGCGAAAGTTTAATGTATGAAGAATGTGACATTTTTGTAC
CAGCTGCTATTGAAAAGGTTATTACAAGTGAAAATGCTCATAAAATCAAAGCAAAAATTA
TTGCTGAAGCTGCCAACGGTCCAACAACTCCAGCTGCAGATAAAATATTGATCGATCGTA
ATATCCTTGTCATTCCTGATCTTTACATAAACGCTGGTGGTGTGACAGTTTCATTCTTTG
AATGGCTTAAAAATCTTAATCATGTTTCATATGGACGTTTAACATTTAAATATGAACGTG
AATCAAACTATCACTTATTAGAAAGTGTACAAGAATCTTTGGAACGCAGATTCGGTCGTG
TAGGTGGAAAAATTCCAGTGACGCCTTCAGAAGCTTTCCAAAAAAGAATTTCAGGTGCAT
CTGAAAAAGATATTGTTCACTCTGGTCTTGATTATACAATGGAAAGATCAGCACGCGCAA
TAATGAGAACTGCAACACGTTTCAATCTTGGTCTTGATCTGAGAACTGCTGCTTATGTCA
ACTCAATCGAGAAAATTTTCACAACCTATCGTGATGCTGGCTTGGCTTTTTAAATGACAA
TCACTTGACCACA
>g3564.t18 Gene=g3564 Length=186
MYEECDIFVPAAIEKVITSENAHKIKAKIIAEAANGPTTPAADKILIDRNILVIPDLYIN
AGGVTVSFFEWLKNLNHVSYGRLTFKYERESNYHLLESVQESLERRFGRVGGKIPVTPSE
AFQKRISGASEKDIVHSGLDYTMERSARAIMRTATRFNLGLDLRTAAYVNSIEKIFTTYR
DAGLAF
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g3564.t18 | Gene3D | G3DSA:3.40.50.720 | - | 1 | 186 | 0 |
| 2 | g3564.t18 | PANTHER | PTHR11606:SF15 | GLUTAMATE DEHYDROGENASE 2, MITOCHONDRIAL | 4 | 186 | 0 |
| 3 | g3564.t18 | PANTHER | PTHR11606 | GLUTAMATE DEHYDROGENASE | 4 | 186 | 0 |
| 1 | g3564.t18 | Pfam | PF00208 | Glutamate/Leucine/Phenylalanine/Valine dehydrogenase | 4 | 83 | 0 |
| 5 | g3564.t18 | SMART | SM00839 | ELFV_dehydrog_3 | 1 | 183 | 0 |
| 4 | g3564.t18 | SUPERFAMILY | SSF51735 | NAD(P)-binding Rossmann-fold domains | 4 | 184 | 0 |
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:0006520 | cellular amino acid metabolic process | BP |
| GO:0055114 | NA | NA |
| GO:0016491 | oxidoreductase 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.
