Gene loci information

Transcript annotation

  • This transcript has been annotated as Fumarylacetoacetase.

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 g8482 g8482.t16 TTS g8482.t16 30915586 30915586
chr_2 g8482 g8482.t16 isoform g8482.t16 30916460 30917321
chr_2 g8482 g8482.t16 exon g8482.t16.exon1 30916460 30916899
chr_2 g8482 g8482.t16 cds g8482.t16.CDS1 30916461 30916899
chr_2 g8482 g8482.t16 exon g8482.t16.exon2 30916959 30917176
chr_2 g8482 g8482.t16 cds g8482.t16.CDS2 30916959 30917176
chr_2 g8482 g8482.t16 exon g8482.t16.exon3 30917234 30917321
chr_2 g8482 g8482.t16 cds g8482.t16.CDS3 30917234 30917263
chr_2 g8482 g8482.t16 TSS g8482.t16 30917422 30917422

Sequences

>g8482.t16 Gene=g8482 Length=746
ATGTCAACGTTTGTAGATATTCCAGTTGGAAGCGATTTTCCATTACAAAATTTACCTTAT
GGCGTATTTTCCACAGCAAATAAAGTTAGTCAACCGGCGCATTGGAGTTGCGATTGGCGA
GAAGATTTTAGATTTAAGCGTTGTTGCCACATTTTATCCTGAGTACGTTCAAAATGCTTT
ACGCGCTGATGTTTTAAATGAACTTATGGAACTCGGATATGATGCATGGAATGATGTTCG
TCGAATTACGAAAAGTCTTCTCACCACTGGCTCTGATTTACATCAAAATACTGAATTGCA
AAAAATTGCTCTCATTAATCAATCAGATGCACAAATGCATTTGCCAGCAAAAATTGGCGA
TTATACTGATTTTTATTCTTCAATTCATCATGCAACGAATGTTGGTGTGATGTTTAGAGG
AAAGGAGAATGCACTTATGCCAAATTGGAAATGGCTACCAGTTGGTTATCATGGACGTGC
AAGTTCTGTTGTTGTTTCTGGTACACCAATTAATCGACCTCTTGGTCAGACTCAACCTGT
TGATGGCGCTGATCCTGTTTTTGGGCCTTGTCGTCTATTTGATTTTGAACTTGAAATGGC
ATTTTTCATTGGTGGACCAGCAAATAAACTTGGCGAACGTGTTACAACAAAAGAAGCAGC
AAAACGTGTTTTTGGTTTTGTTCTTATGAATGATTGGAGTGCACGTGATGTACAGAAATG
GGAATATGTTCCATTAGGTCCATTTA

>g8482.t16 Gene=g8482 Length=229
MAYFPQQIKLVNRRIGVAIGEKILDLSVVATFYPEYVQNALRADVLNELMELGYDAWNDV
RRITKSLLTTGSDLHQNTELQKIALINQSDAQMHLPAKIGDYTDFYSSIHHATNVGVMFR
GKENALMPNWKWLPVGYHGRASSVVVSGTPINRPLGQTQPVDGADPVFGPCRLFDFELEM
AFFIGGPANKLGERVTTKEAAKRVFGFVLMNDWSARDVQKWEYVPLGPF

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g8482.t16 Gene3D G3DSA:2.30.30.230 Fumarylacetoacetate hydrolase 4 93 0
8 g8482.t16 Gene3D G3DSA:3.90.850.10 Fumarylacetoacetate hydrolase 94 229 0
3 g8482.t16 PANTHER PTHR43069:SF2 FUMARYLACETOACETASE 12 229 0
4 g8482.t16 PANTHER PTHR43069 FUMARYLACETOACETASE 12 229 0
1 g8482.t16 Pfam PF09298 Fumarylacetoacetase N-terminal 12 96 0
2 g8482.t16 Pfam PF01557 Fumarylacetoacetate (FAA) hydrolase family 102 229 0
6 g8482.t16 SUPERFAMILY SSF63433 Fumarylacetoacetate hydrolase, FAH, N-terminal domain 13 96 0
5 g8482.t16 SUPERFAMILY SSF56529 FAH 98 229 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:0009072 aromatic amino acid family metabolic process BP
GO:0004334 fumarylacetoacetase activity MF
GO:0003824 catalytic 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