General information for g3564.t9
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.t9 | TSS | g3564.t9 | 26453991 | 26453991 |
| chr_3 | g3564 | g3564.t9 | isoform | g3564.t9 | 26454100 | 26457928 |
| chr_3 | g3564 | g3564.t9 | exon | g3564.t9.exon1 | 26454100 | 26454274 |
| chr_3 | g3564 | g3564.t9 | exon | g3564.t9.exon2 | 26454356 | 26454593 |
| chr_3 | g3564 | g3564.t9 | cds | g3564.t9.CDS1 | 26454413 | 26454593 |
| chr_3 | g3564 | g3564.t9 | exon | g3564.t9.exon3 | 26456961 | 26457028 |
| chr_3 | g3564 | g3564.t9 | cds | g3564.t9.CDS2 | 26456961 | 26457028 |
| chr_3 | g3564 | g3564.t9 | exon | g3564.t9.exon4 | 26457089 | 26457467 |
| chr_3 | g3564 | g3564.t9 | cds | g3564.t9.CDS3 | 26457089 | 26457467 |
| chr_3 | g3564 | g3564.t9 | exon | g3564.t9.exon5 | 26457630 | 26457818 |
| chr_3 | g3564 | g3564.t9 | cds | g3564.t9.CDS4 | 26457630 | 26457655 |
| chr_3 | g3564 | g3564.t9 | exon | g3564.t9.exon6 | 26457879 | 26457928 |
| chr_3 | g3564 | g3564.t9 | TTS | g3564.t9 | NA | NA |
Sequences
>g3564.t9 Gene=g3564 Length=1099
ATGTTTCACTTGAAGAAAATTATTAAATCACCATTAGTTAATCCAAAAGAGTTGTCACGC
GTTCTGCCAATTGCATTCAATAATCAATCATGTCGCGATTATTCCGGTCATCAAATTCCA
GAACGTTTGCAGTCTGTTCCTACAGACACAAATCCAAAATTCTTTGATATGGTGAGTTGA
ATATTTCTATCACCGTGGATGTCAAGTTGTTGAGGATTCCTTGGTGGAAAATATGAAGGA
ACGTGCTACACTTGAAGAAAAACGTCATAAAGTTAGAGGAATTTTAATGCTCATGCAAAC
TTGCGACCATATTATTGAAATTACCTTCCCTCTTCGTCGTGATAATGGAGTTTATGAGCT
CATCACTGGCTATCGTGCTCAACATTCAACACATCGTACTCCAACTAAAGGAGGTATTCG
TTTTTCAATGGATGTCTCCCGTGATGAAGTAAAAGCCTTATCTGCATTGATGACATTTAA
GTGTGCTTGTGTCGACGTTCCATTTGGAGGAGCAAAGGCTGGAATCAGAATTAATCCGAA
AGAATACTCAGAACATGAGTTAGAAAAGATTACACGTCGTTTTGCCCTTGAATTAGCAAA
GAAAGGATTTATCGGACCAGGAGTCGATGTTCCTGCACCCGATATGGGAACTGGAGAACG
CGAAATGAGCTGGATTGCTGACACATATGCAAAGACCATTGGATATCAAGATATTAACGC
ACATGCTTGTATCACTGGTAAACCAATTAATCAAGGAGGTATTCATGGAAGAGTTTCTGC
TACAGGTCGTGGAGTGTTCCATGGTCTCGAGAATTTTATTAATGAAGCATCATATATGAG
TCAAATTGGAACAACGCCTGACATTTGTTGTGCAAGGTTTTGGTAATGTCGGTCTTCATA
CATGTCGCTATTTGACACGAGCTGGAGCTACATGCATTGGAATCATTGAACATGATGGAT
CAATTTATAATCCACAAGGTATTGACCCCAAAGCACTCGAGGATTATAGAATTGAACACG
GAACTATTGTTGGCTTTCCAGGAGCTAAACCATATGAAGGCGAAAGTTTAATGTATGAAG
AATGTGACATTTTTGTACC
>g3564.t9 Gene=g3564 Length=217
MKERATLEEKRHKVRGILMLMQTCDHIIEITFPLRRDNGVYELITGYRAQHSTHRTPTKG
GIRFSMDVSRDEVKALSALMTFKCACVDVPFGGAKAGIRINPKEYSEHELEKITRRFALE
LAKKGFIGPGVDVPAPDMGTGEREMSWIADTYAKTIGYQDINAHACITGKPINQGGIHGR
VSATGRGVFHGLENFINEASYMSQIGTTPDICCARFW
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g3564.t9 | Gene3D | G3DSA:3.40.50.10860 | Leucine Dehydrogenase | 26 | 171 | 1.2E-66 |
| 8 | g3564.t9 | Gene3D | G3DSA:3.40.50.720 | - | 172 | 209 | 7.5E-7 |
| 2 | g3564.t9 | PANTHER | PTHR11606 | GLUTAMATE DEHYDROGENASE | 1 | 211 | 2.5E-112 |
| 3 | g3564.t9 | PANTHER | PTHR11606:SF33 | GLUTAMATE DEHYDROGENASE 1 | 1 | 211 | 2.5E-112 |
| 4 | g3564.t9 | PRINTS | PR00082 | Glutamate/leucine/phenylalanine/valine dehydrogenase signature | 81 | 95 | 4.9E-16 |
| 5 | g3564.t9 | PRINTS | PR00082 | Glutamate/leucine/phenylalanine/valine dehydrogenase signature | 166 | 188 | 4.9E-16 |
| 1 | g3564.t9 | Pfam | PF02812 | Glu/Leu/Phe/Val dehydrogenase, dimerisation domain | 26 | 153 | 4.3E-58 |
| 7 | g3564.t9 | ProSitePatterns | PS00074 | Glu / Leu / Phe / Val dehydrogenases active site. | 89 | 102 | - |
| 6 | g3564.t9 | SUPERFAMILY | SSF53223 | Aminoacid dehydrogenase-like, N-terminal domain | 8 | 177 | 7.36E-64 |
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.
