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.t2 TSS g3564.t2 26453991 26453991
chr_3 g3564 g3564.t2 isoform g3564.t2 26454100 26459067
chr_3 g3564 g3564.t2 exon g3564.t2.exon1 26454100 26454270
chr_3 g3564 g3564.t2 cds g3564.t2.CDS1 26454100 26454270
chr_3 g3564 g3564.t2 exon g3564.t2.exon2 26454356 26454593
chr_3 g3564 g3564.t2 cds g3564.t2.CDS2 26454356 26454593
chr_3 g3564 g3564.t2 exon g3564.t2.exon3 26456961 26457028
chr_3 g3564 g3564.t2 cds g3564.t2.CDS3 26456961 26457028
chr_3 g3564 g3564.t2 exon g3564.t2.exon4 26457089 26457467
chr_3 g3564 g3564.t2 cds g3564.t2.CDS4 26457089 26457467
chr_3 g3564 g3564.t2 exon g3564.t2.exon5 26457548 26457561
chr_3 g3564 g3564.t2 cds g3564.t2.CDS5 26457548 26457561
chr_3 g3564 g3564.t2 exon g3564.t2.exon6 26457630 26457818
chr_3 g3564 g3564.t2 cds g3564.t2.CDS6 26457630 26457818
chr_3 g3564 g3564.t2 exon g3564.t2.exon7 26457879 26458188
chr_3 g3564 g3564.t2 cds g3564.t2.CDS7 26457879 26458188
chr_3 g3564 g3564.t2 exon g3564.t2.exon8 26458735 26458884
chr_3 g3564 g3564.t2 cds g3564.t2.CDS8 26458735 26458884
chr_3 g3564 g3564.t2 exon g3564.t2.exon9 26458946 26459067
chr_3 g3564 g3564.t2 cds g3564.t2.CDS9 26458946 26459067
chr_3 g3564 g3564.t2 TTS g3564.t2 26459449 26459449

Sequences

>g3564.t2 Gene=g3564 Length=1641
ATGTTTCACTTGAAGAAAATTATTAAATCACCATTAGTTAATCCAAAAGAGTTGTCACGC
GTTCTGCCAATTGCATTCAATAATCAATCATGTCGCGATTATTCCGGTCATCAAATTCCA
GAACGTTTGCAGTCTGTTCCTACAGACACAAATCCAAAATTCTTTGATATGGTTGAATAT
TTCTATCACCGTGGATGTCAAGTTGTTGAGGATTCCTTGGTGGAAAATATGAAGGAACGT
GCTACACTTGAAGAAAAACGTCATAAAGTTAGAGGAATTTTAATGCTCATGCAAACTTGC
GACCATATTATTGAAATTACCTTCCCTCTTCGTCGTGATAATGGAGTTTATGAGCTCATC
ACTGGCTATCGTGCTCAACATTCAACACATCGTACTCCAACTAAAGGAGGTATTCGTTTT
TCAATGGATGTCTCCCGTGATGAAGTAAAAGCCTTATCTGCATTGATGACATTTAAGTGT
GCTTGTGTCGACGTTCCATTTGGAGGAGCAAAGGCTGGAATCAGAATTAATCCGAAAGAA
TACTCAGAACATGAGTTAGAAAAGATTACACGTCGTTTTGCCCTTGAATTAGCAAAGAAA
GGATTTATCGGACCAGGAGTCGATGTTCCTGCACCCGATATGGGAACTGGAGAACGCGAA
ATGAGCTGGATTGCTGACACATATGCAAAGACCATTGGATATCAAGATATTAACGCACAT
GCTTGTATCACTGGTAAACCAATTAATCAAGGAGGTATTCATGGAAGAGTTTCTGCTACA
GGTCGTGGAGTGTTCCATGGTCTCGAGAATTTTATTAATGAAGCATCATATATGAGTCAA
ATTGGAACAACGCCTGGATGGGGTGGCAAGACATTTGTTGTGCAAGGTTTTGGTAATGTC
GGTCTTCATACATGTCGCTATTTGACACGAGCTGGAGCTACATGCATTGGAATCATTGAA
CATGATGGATCAATTTATAATCCACAAGGTATTGACCCCAAAGCACTCGAGGATTATAGA
ATTGAACACGGAACTATTGTTGGCTTTCCAGGAGCTAAACCATATGAAGGCGAAAGTTTA
ATGTATGAAGAATGTGACATTTTTGTACCAGCTGCTATTGAAAAGGTTATTACAAGTGAA
AATGCTCATAAAATCAAAGCAAAAATTATTGCTGAAGCTGCCAACGGTCCAACAACTCCA
GCTGCAGATAAAATATTGATCGATCGTAATATCCTTGTCATTCCTGATCTTTACATAAAC
GCTGGTGGTGTGACAGTTTCATTCTTTGAATGGCTTAAAAATCTTAATCATGTTTCATAT
GGACGTTTAACATTTAAATATGAACGTGAATCAAACTATCACTTATTAGAAAGTGTACAA
GAATCTTTGGAACGCAGATTCGGTCGTGTAGGTGGAAAAATTCCAGTGACGCCTTCAGAA
GCTTTCCAAAAAAGAATTTCAGGTGCATCTGAAAAAGATATTGTTCACTCTGGTCTTGAT
TATACAATGGAAAGATCAGCACGCGCAATAATGAGAACTGCAACACGTTTCAATCTTGGT
CTTGATCTGAGAACTGCTGCTTATGTCAACTCAATCGAGAAAATTTTCACAACCTATCGT
GATGCTGGCTTGGCTTTTTAA

>g3564.t2 Gene=g3564 Length=546
MFHLKKIIKSPLVNPKELSRVLPIAFNNQSCRDYSGHQIPERLQSVPTDTNPKFFDMVEY
FYHRGCQVVEDSLVENMKERATLEEKRHKVRGILMLMQTCDHIIEITFPLRRDNGVYELI
TGYRAQHSTHRTPTKGGIRFSMDVSRDEVKALSALMTFKCACVDVPFGGAKAGIRINPKE
YSEHELEKITRRFALELAKKGFIGPGVDVPAPDMGTGEREMSWIADTYAKTIGYQDINAH
ACITGKPINQGGIHGRVSATGRGVFHGLENFINEASYMSQIGTTPGWGGKTFVVQGFGNV
GLHTCRYLTRAGATCIGIIEHDGSIYNPQGIDPKALEDYRIEHGTIVGFPGAKPYEGESL
MYEECDIFVPAAIEKVITSENAHKIKAKIIAEAANGPTTPAADKILIDRNILVIPDLYIN
AGGVTVSFFEWLKNLNHVSYGRLTFKYERESNYHLLESVQESLERRFGRVGGKIPVTPSE
AFQKRISGASEKDIVHSGLDYTMERSARAIMRTATRFNLGLDLRTAAYVNSIEKIFTTYR
DAGLAF

Protein features from InterProScan

Transcript Database ID Name Start End E.value
14 g3564.t2 CDD cd01076 NAD_bind_1_Glu_DH 251 536 1.05898E-117
12 g3564.t2 Gene3D G3DSA:1.10.287.140 - 51 101 7.2E-24
13 g3564.t2 Gene3D G3DSA:3.40.50.10860 Leucine Dehydrogenase 102 250 1.1E-65
11 g3564.t2 Gene3D G3DSA:3.40.50.720 - 251 546 1.8E-111
3 g3564.t2 PANTHER PTHR11606 GLUTAMATE DEHYDROGENASE 49 546 3.9E-260
4 g3564.t2 PANTHER PTHR11606:SF33 GLUTAMATE DEHYDROGENASE 1 49 546 3.9E-260
8 g3564.t2 PRINTS PR00082 Glutamate/leucine/phenylalanine/valine dehydrogenase signature 157 171 2.9E-32
7 g3564.t2 PRINTS PR00082 Glutamate/leucine/phenylalanine/valine dehydrogenase signature 242 264 2.9E-32
5 g3564.t2 PRINTS PR00082 Glutamate/leucine/phenylalanine/valine dehydrogenase signature 292 312 2.9E-32
6 g3564.t2 PRINTS PR00082 Glutamate/leucine/phenylalanine/valine dehydrogenase signature 419 430 2.9E-32
1 g3564.t2 Pfam PF02812 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain 102 229 3.4E-57
2 g3564.t2 Pfam PF00208 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase 251 442 2.2E-49
15 g3564.t2 ProSitePatterns PS00074 Glu / Leu / Phe / Val dehydrogenases active site. 165 178 -
16 g3564.t2 SMART SM00839 ELFV_dehydrog_3 253 543 1.9E-88
10 g3564.t2 SUPERFAMILY SSF53223 Aminoacid dehydrogenase-like, N-terminal domain 48 253 2.21E-67
9 g3564.t2 SUPERFAMILY SSF51735 NAD(P)-binding Rossmann-fold domains 254 544 2.24E-84

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:0016639 oxidoreductase activity, acting on the CH-NH2 group of donors, NAD or NADP as acceptor MF
GO:0016491 oxidoreductase activity MF

KEGG

Orthology

Pathway

  • This transcript belongs to the following pathways

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