Gene loci information

Transcript annotation

  • This transcript has been annotated as Fumarate hydratase, 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_2 g6704 g6704.t10 TTS g6704.t10 18132833 18132833
chr_2 g6704 g6704.t10 isoform g6704.t10 18133546 18135022
chr_2 g6704 g6704.t10 exon g6704.t10.exon1 18133546 18133562
chr_2 g6704 g6704.t10 cds g6704.t10.CDS1 18133548 18133562
chr_2 g6704 g6704.t10 exon g6704.t10.exon2 18133625 18134065
chr_2 g6704 g6704.t10 cds g6704.t10.CDS2 18133625 18134029
chr_2 g6704 g6704.t10 exon g6704.t10.exon3 18134141 18134277
chr_2 g6704 g6704.t10 exon g6704.t10.exon4 18134338 18134466
chr_2 g6704 g6704.t10 exon g6704.t10.exon5 18134926 18135022
chr_2 g6704 g6704.t10 TSS g6704.t10 18135078 18135078

Sequences

>g6704.t10 Gene=g6704 Length=821
ATGGCTCAAATAACTAATATCAACTTAAGAAAGTTGTCTCAACTAAGCCTCAATGAACTA
GTTCGCCGATCAATATATACAACATCAGCTAGAGTGAGCTGCAGGATTTCGAACTGAATC
GGATACTTTCGGAGAATTAAAAGTTCCAGATGATAAATACTATGGAGCTCAAACTGTTAG
AAGTACCATGAATTTCCCTATTGGTGGACCAACTGAAAGAATGCCACAACCAGTTATCAC
TGCAATGGGTATATTGAAGAAAGCTGCTGCTCTTGTTAACAAAGAGTATGGTCTTGATCC
AAAAATTGCTGATGCAATTTCTGAAGCTGCAGATGATGTTATATCTGGAAAACTTTATGA
TGAGTCATTTGGCAAACAGGATCAGGCACACAATCCAATATGAACGTAAATGAAGTCATT
AGCAATCGTGCTATTGAACTTTTAGGTGGAACGTTGGGATCTAAAACACCTGTTCATCCA
AATGATCATGTTAATAAATCCCAAAGTTCTAATGACACCTTTCCCACTGCAATTCATATT
TCCGTTGCTCGAGAGCTAAATTCAAATTTAAAACCAGCTCTTAAAGGTCTTCATGATGCA
CTAAATGCAAAATCAAATGAATTTAAAGATATAATTAAAATTGGTCGTACACATACTCAA
GATGCAGTTCCACTTACTTTGGGACAAGAGTTTAGTGGCTACGTTCAACAAATGAAATTT
GCTCTTGATCGTATTGAAGCAGTTTTACCGCGTGTGTATATGCTTGCTCTTGGAGGATCT
GCAGTCGGAACTGGACTTAATACGAGAATCGGTTTTGCTGA

>g6704.t10 Gene=g6704 Length=140
MNVNEVISNRAIELLGGTLGSKTPVHPNDHVNKSQSSNDTFPTAIHISVARELNSNLKPA
LKGLHDALNAKSNEFKDIIKIGRTHTQDAVPLTLGQEFSGYVQQMKFALDRIEAVLPRVY
MLALGGSAVGTGLNTRIGFA

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g6704.t10 Gene3D G3DSA:1.10.275.10 - 1 35 0
7 g6704.t10 Gene3D G3DSA:1.20.200.10 Fumarase/aspartase (Central domain) 36 140 0
2 g6704.t10 PANTHER PTHR11444 ASPARTATEAMMONIA/ARGININOSUCCINATE/ADENYLOSUCCINATE LYASE 1 140 0
4 g6704.t10 PRINTS PR00149 Fumarate lyase superfamily signature 31 49 0
3 g6704.t10 PRINTS PR00149 Fumarate lyase superfamily signature 77 95 0
1 g6704.t10 Pfam PF00206 Lyase 1 139 0
5 g6704.t10 SUPERFAMILY SSF48557 L-aspartase-like 1 138 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:0045239 tricarboxylic acid cycle enzyme complex CC
GO:0003824 catalytic activity MF
GO:0006106 fumarate metabolic process BP
GO:0004333 fumarate hydratase 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. There were no conditions that were differentially expressed