General information for g3564.t16
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative 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.t16 | isoform | g3564.t16 | 26457464 | 26458174 |
| chr_3 | g3564 | g3564.t16 | exon | g3564.t16.exon1 | 26457464 | 26457482 |
| chr_3 | g3564 | g3564.t16 | exon | g3564.t16.exon2 | 26457630 | 26457818 |
| chr_3 | g3564 | g3564.t16 | exon | g3564.t16.exon3 | 26457879 | 26458174 |
| chr_3 | g3564 | g3564.t16 | cds | g3564.t16.CDS1 | 26457900 | 26458172 |
| chr_3 | g3564 | g3564.t16 | TSS | g3564.t16 | NA | NA |
| chr_3 | g3564 | g3564.t16 | TTS | g3564.t16 | NA | NA |
Sequences
>g3564.t16 Gene=g3564 Length=504
CCTGGTAATTTTATTTGAAACATTTGTTGTGCAAGGTTTTGGTAATGTCGGTCTTCATAC
ATGTCGCTATTTGACACGAGCTGGAGCTACATGCATTGGAATCATTGAACATGATGGATC
AATTTATAATCCACAAGGTATTGACCCCAAAGCACTCGAGGATTATAGAATTGAACACGG
AACTATTGTTGGCTTTCCAGGAGCTAAACCATATGAAGGCGAAAGTTTAATGTATGAAGA
ATGTGACATTTTTGTACCAGCTGCTATTGAAAAGGTTATTACAAGTGAAAATGCTCATAA
AATCAAAGCAAAAATTATTGCTGAAGCTGCCAACGGTCCAACAACTCCAGCTGCAGATAA
AATATTGATCGATCGTAATATCCTTGTCATTCCTGATCTTTACATAAACGCTGGTGGTGT
GACAGTTTCATTCTTTGAATGGCTTAAAAATCTTAATCATGTTTCATATGGACGTTTAAC
ATTTAAATATGAACGTGAATCAAA
>g3564.t16 Gene=g3564 Length=91
MYEECDIFVPAAIEKVITSENAHKIKAKIIAEAANGPTTPAADKILIDRNILVIPDLYIN
AGGVTVSFFEWLKNLNHVSYGRLTFKYERES
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g3564.t16 | Gene3D | G3DSA:3.40.50.720 | - | 1 | 91 | 0e+00 |
| 2 | g3564.t16 | PANTHER | PTHR11606 | GLUTAMATE DEHYDROGENASE | 1 | 91 | 0e+00 |
| 3 | g3564.t16 | PANTHER | PTHR11606:SF13 | GLUTAMATE DEHYDROGENASE 1, MITOCHONDRIAL | 1 | 91 | 0e+00 |
| 1 | g3564.t16 | Pfam | PF00208 | Glutamate/Leucine/Phenylalanine/Valine dehydrogenase | 4 | 81 | 0e+00 |
| 5 | g3564.t16 | SMART | SM00839 | ELFV_dehydrog_3 | 1 | 89 | 6e-07 |
| 4 | g3564.t16 | SUPERFAMILY | SSF51735 | NAD(P)-binding Rossmann-fold domains | 2 | 86 | 0e+00 |
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. There were no conditions that were differentially expressed