Gene loci information

Transcript annotation

  • This transcript has been annotated as Glutamate dehydrogenase, mitochondrial.

Parent gene

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.t6 TSS g3564.t6 26453991 26453991
chr_3 g3564 g3564.t6 isoform g3564.t6 26454100 26457882
chr_3 g3564 g3564.t6 exon g3564.t6.exon1 26454100 26454270
chr_3 g3564 g3564.t6 exon g3564.t6.exon2 26454356 26454597
chr_3 g3564 g3564.t6 exon g3564.t6.exon3 26456961 26457028
chr_3 g3564 g3564.t6 cds g3564.t6.CDS1 26457017 26457028
chr_3 g3564 g3564.t6 exon g3564.t6.exon4 26457089 26457467
chr_3 g3564 g3564.t6 cds g3564.t6.CDS2 26457089 26457467
chr_3 g3564 g3564.t6 exon g3564.t6.exon5 26457630 26457818
chr_3 g3564 g3564.t6 cds g3564.t6.CDS3 26457630 26457655
chr_3 g3564 g3564.t6 exon g3564.t6.exon6 26457879 26457882
chr_3 g3564 g3564.t6 TTS g3564.t6 NA NA

Sequences

>g3564.t6 Gene=g3564 Length=1053
ATGTTTCACTTGAAGAAAATTATTAAATCACCATTAGTTAATCCAAAAGAGTTGTCACGC
GTTCTGCCAATTGCATTCAATAATCAATCATGTCGCGATTATTCCGGTCATCAAATTCCA
GAACGTTTGCAGTCTGTTCCTACAGACACAAATCCAAAATTCTTTGATATGGTTGAATAT
TTCTATCACCGTGGATGTCAAGTTGTTGAGGATTCCTTGGTGGAAAATATGAAGGAACGT
GCTACACTTGAAGAAAAACGTCATAAAGTTAGAGGAATTTTAATGCTCATGCAAACTTGC
GACCATATTATTGAAATTACCTTCCCTCTTCGTCGTGATAATGGAGTTTATGAGCTCATC
ACTGGCTATCGTGCTCAACATTCAACACATCGTACTCCAACTAAAGGAGGTGAGTATTCG
TTTTTCAATGGATGTCTCCCGTGATGAAGTAAAAGCCTTATCTGCATTGATGACATTTAA
GTGTGCTTGTGTCGACGTTCCATTTGGAGGAGCAAAGGCTGGAATCAGAATTAATCCGAA
AGAATACTCAGAACATGAGTTAGAAAAGATTACACGTCGTTTTGCCCTTGAATTAGCAAA
GAAAGGATTTATCGGACCAGGAGTCGATGTTCCTGCACCCGATATGGGAACTGGAGAACG
CGAAATGAGCTGGATTGCTGACACATATGCAAAGACCATTGGATATCAAGATATTAACGC
ACATGCTTGTATCACTGGTAAACCAATTAATCAAGGAGGTATTCATGGAAGAGTTTCTGC
TACAGGTCGTGGAGTGTTCCATGGTCTCGAGAATTTTATTAATGAAGCATCATATATGAG
TCAAATTGGAACAACGCCTGACATTTGTTGTGCAAGGTTTTGGTAATGTCGGTCTTCATA
CATGTCGCTATTTGACACGAGCTGGAGCTACATGCATTGGAATCATTGAACATGATGGAT
CAATTTATAATCCACAAGGTATTGACCCCAAAGCACTCGAGGATTATAGAATTGAACACG
GAACTATTGTTGGCTTTCCAGGAGCTAAACCAT

>g3564.t6 Gene=g3564 Length=138
MTFKCACVDVPFGGAKAGIRINPKEYSEHELEKITRRFALELAKKGFIGPGVDVPAPDMG
TGEREMSWIADTYAKTIGYQDINAHACITGKPINQGGIHGRVSATGRGVFHGLENFINEA
SYMSQIGTTPDICCARFW

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g3564.t6 Gene3D G3DSA:3.40.50.10860 Leucine Dehydrogenase 1 92 1.6E-42
8 g3564.t6 Gene3D G3DSA:3.40.50.720 - 93 131 3.4E-7
2 g3564.t6 PANTHER PTHR11606 GLUTAMATE DEHYDROGENASE 1 132 4.8E-73
3 g3564.t6 PANTHER PTHR11606:SF33 GLUTAMATE DEHYDROGENASE 1 1 132 4.8E-73
5 g3564.t6 PRINTS PR00082 Glutamate/leucine/phenylalanine/valine dehydrogenase signature 2 16 2.6E-16
4 g3564.t6 PRINTS PR00082 Glutamate/leucine/phenylalanine/valine dehydrogenase signature 87 109 2.6E-16
1 g3564.t6 Pfam PF02812 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain 1 74 3.8E-32
7 g3564.t6 ProSitePatterns PS00074 Glu / Leu / Phe / Val dehydrogenases active site. 10 23 -
6 g3564.t6 SUPERFAMILY SSF53223 Aminoacid dehydrogenase-like, N-terminal domain 1 98 1.28E-39

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.

Raw TPM values