General information for g3564.t4
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.t4 | TSS | g3564.t4 | 26453991 | 26453991 |
| chr_3 | g3564 | g3564.t4 | isoform | g3564.t4 | 26454100 | 26455656 |
| chr_3 | g3564 | g3564.t4 | exon | g3564.t4.exon1 | 26454100 | 26454270 |
| chr_3 | g3564 | g3564.t4 | cds | g3564.t4.CDS1 | 26454100 | 26454270 |
| chr_3 | g3564 | g3564.t4 | exon | g3564.t4.exon2 | 26454356 | 26454593 |
| chr_3 | g3564 | g3564.t4 | cds | g3564.t4.CDS2 | 26454356 | 26454593 |
| chr_3 | g3564 | g3564.t4 | exon | g3564.t4.exon3 | 26455197 | 26455656 |
| chr_3 | g3564 | g3564.t4 | cds | g3564.t4.CDS3 | 26455197 | 26455270 |
| chr_3 | g3564 | g3564.t4 | TTS | g3564.t4 | NA | NA |
Sequences
>g3564.t4 Gene=g3564 Length=869
ATGTTTCACTTGAAGAAAATTATTAAATCACCATTAGTTAATCCAAAAGAGTTGTCACGC
GTTCTGCCAATTGCATTCAATAATCAATCATGTCGCGATTATTCCGGTCATCAAATTCCA
GAACGTTTGCAGTCTGTTCCTACAGACACAAATCCAAAATTCTTTGATATGGTTGAATAT
TTCTATCACCGTGGATGTCAAGTTGTTGAGGATTCCTTGGTGGAAAATATGAAGGAACGT
GCTACACTTGAAGAAAAACGTCATAAAGTTAGAGGAATTTTAATGCTCATGCAAACTTGC
GACCATATTATTGAAATTACCTTCCCTCTTCGTCGTGATAATGGAGTTTATGAGCTCATC
ACTGGCTATCGTGCTCAACATTCAACACATCGTACTCCAACTAAAGGAGATCAGACAATC
CAGATCAGACTAAATGAATTTACTTGCCAAAAAGCAAAATTGATAAAATTAACCAATGGC
TGAAATACGTTATCATCAATACGAAAAAATAATGTTAACTTGCTTCGACACATTCTTAGT
GATAACAAAACTTGAAATAAACATTTAAAATTTACTGATTAAATAACTTCATCCAACTTC
ATTTATTGATGATAATCAATGTCAAATACCCATAAATCAGTATTGCACAATAGAAAATTG
AAAGGTTTAGTGTAACGTGTAAAAAAGAGCATAGCAACGAAATGATGTTTTTTATCACAA
ATATAAGGGAAATATTTATACAAGCTTTTAGATGTTTCATTAACAATTAACATACTTATG
AAACATTAACATTCAAATAATTAATTCTTTAAATATTTTATCGTTCCATTGTTGCCAAAT
TAAAAAAAATATATGAAAACAAAAATTAA
>g3564.t4 Gene=g3564 Length=160
MFHLKKIIKSPLVNPKELSRVLPIAFNNQSCRDYSGHQIPERLQSVPTDTNPKFFDMVEY
FYHRGCQVVEDSLVENMKERATLEEKRHKVRGILMLMQTCDHIIEITFPLRRDNGVYELI
TGYRAQHSTHRTPTKGDQTIQIRLNEFTCQKAKLIKLTNG
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g3564.t4 | Gene3D | G3DSA:1.10.287.140 | - | 51 | 99 | 0 |
| 6 | g3564.t4 | Gene3D | G3DSA:3.40.50.10860 | Leucine Dehydrogenase | 100 | 153 | 0 |
| 2 | g3564.t4 | PANTHER | PTHR11606 | GLUTAMATE DEHYDROGENASE | 49 | 137 | 0 |
| 3 | g3564.t4 | PANTHER | PTHR11606:SF33 | GLUTAMATE DEHYDROGENASE 1 | 49 | 137 | 0 |
| 1 | g3564.t4 | Pfam | PF02812 | Glu/Leu/Phe/Val dehydrogenase, dimerisation domain | 102 | 140 | 0 |
| 4 | g3564.t4 | SUPERFAMILY | SSF53223 | Aminoacid dehydrogenase-like, N-terminal domain | 48 | 136 | 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.
