Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative NADP-dependent malic enzyme, 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 g3335 g3335.t6 TSS g3335.t6 24723961 24723961
chr_3 g3335 g3335.t6 isoform g3335.t6 24724136 24726328
chr_3 g3335 g3335.t6 exon g3335.t6.exon1 24724136 24724155
chr_3 g3335 g3335.t6 cds g3335.t6.CDS1 24724136 24724155
chr_3 g3335 g3335.t6 exon g3335.t6.exon2 24725121 24725263
chr_3 g3335 g3335.t6 cds g3335.t6.CDS2 24725121 24725263
chr_3 g3335 g3335.t6 exon g3335.t6.exon3 24725319 24725466
chr_3 g3335 g3335.t6 cds g3335.t6.CDS3 24725319 24725466
chr_3 g3335 g3335.t6 exon g3335.t6.exon4 24725537 24725582
chr_3 g3335 g3335.t6 cds g3335.t6.CDS4 24725537 24725582
chr_3 g3335 g3335.t6 exon g3335.t6.exon5 24726089 24726166
chr_3 g3335 g3335.t6 cds g3335.t6.CDS5 24726089 24726166
chr_3 g3335 g3335.t6 exon g3335.t6.exon6 24726220 24726265
chr_3 g3335 g3335.t6 cds g3335.t6.CDS6 24726220 24726228
chr_3 g3335 g3335.t6 exon g3335.t6.exon7 24726323 24726328
chr_3 g3335 g3335.t6 TTS g3335.t6 NA NA

Sequences

>g3335.t6 Gene=g3335 Length=487
ATGTCTCTTAGACTTTTAATTCGTAATGGGTCGTTTGCGCGATCATATCCAAATCTTGCA
ATATGTGGTACGACTTCTTCACCGAAAAAGTCAACACCCAATCAGCAAATTCGCTTGCAT
CATGAAGTTACAGGCGACATAATTGTTCCGTCTATGGTTATGGGAATTGATCATTTAAGA
GATCCGCGTTTAAATAAAGGTCTTGCATTTTCACTTCAAGAACGTCAGGTATTAGGCATT
CATGGTCTTCAACCAGCACGAATAAAGACTCAAGAAGAACAATTAGAGCTGTGTAAAATT
TCAATTATGAGATATCAAGAAGATTTAAATAAATATCAATATCTTGTAGACTTACAGGAT
CGAAATGAACGTCTATTTTTTCGTTTAGTATCAGAGAATGTTGAAATGATGATGCCCATC
ATTTATACACCAACTCTTCTTTAAAACTTTTTCTAGGTTGGTTCAGCTTGCCAAAAATTC
GGCTTAA

>g3335.t6 Gene=g3335 Length=147
MSLRLLIRNGSFARSYPNLAICGTTSSPKKSTPNQQIRLHHEVTGDIIVPSMVMGIDHLR
DPRLNKGLAFSLQERQVLGIHGLQPARIKTQEEQLELCKISIMRYQEDLNKYQYLVDLQD
RNERLFFRLVSENVEMMMPIIYTPTLL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g3335.t6 Coils Coil Coil 88 108 -
4 g3335.t6 Gene3D G3DSA:3.30.2330.30 - 36 51 5.7E-36
5 g3335.t6 Gene3D G3DSA:1.20.1370.30 - 52 146 5.7E-36
1 g3335.t6 PANTHER PTHR23406 MALIC ENZYME-RELATED 42 146 1.7E-30
2 g3335.t6 PANTHER PTHR23406:SF80 GH17657P-RELATED 42 146 1.7E-30
3 g3335.t6 SUPERFAMILY SSF53223 Aminoacid dehydrogenase-like, N-terminal domain 38 145 1.51E-27

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

GO terms from InterProScan

There are no GO annotations for this transcript.

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