Gene loci information

Transcript annotation

  • This transcript has been annotated as Ornithine aminotransferase, 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_4 g14829 g14829.t2 TSS g14829.t2 2569708 2569708
chr_4 g14829 g14829.t2 isoform g14829.t2 2569792 2571099
chr_4 g14829 g14829.t2 exon g14829.t2.exon1 2569792 2570296
chr_4 g14829 g14829.t2 exon g14829.t2.exon2 2570387 2571099
chr_4 g14829 g14829.t2 cds g14829.t2.CDS1 2570461 2571099
chr_4 g14829 g14829.t2 TTS g14829.t2 2571342 2571342

Sequences

>g14829.t2 Gene=g14829 Length=1218
ATGTCTCGTTTACATTTGTTCTCACGTGTTGTTCAACTACGTTCACTTTCAACATCGCAA
TCTCGTCTCGGACACGCAGTAAATCTCGATACACTACCACAAAAATCGCGTGATATCATC
AAACGAGAACGACTCGTAACTTGCAATAATTATTCAGCATTGCCAGCTGTTTTATGTGCC
GGCAAAGGCGTGTTTCTTTATGACGTTGATGGAAATAAATATTACGATTATTTGAGCGGT
TATTCAAGTGTAAATCAAGGTCACTGTCATCCAAAAATCATTGATGCACTTGTCAAACAA
GTTACAGTGCTGCATCATACATCCAGGGCTTTTCATAGTGATTTGTTGGTCGAATATGCT
GAATTTCTTACTGATCTATTCAAATATGATGCTATGCTACCTATGAATACTGGCGTTGAA
GCTGCCGAAAGTGCAGTAAAAATAGCTCGCAAATGGGGCTATAAAGTAAAGAAAATTCCC
ACAAACAAAGCAAAAATTATTTTCTGATTTGTAAACATTCCCTATGATGATATTGAAAGT
TTAGAGAAAGAATTGCAGGATGAAAATGTTTGTGCATTTATGGCTGAACCAATACAAGGT
GAAGCAGGTGTGGTTGTGCCATCTGATGGATATTTAACAAAAGTTCGTGAACTCTGTACA
AAACACAATGTTTTATTTATTGCTGATGAAATTCAAACAGGATTGGGAAGAACTGGACGA
AGACTTGCAGTTGATCATGAAAATGTTAGACCTGATATCATCGTTCTTGGAAAGGCACTT
TCAGGTGGTGTGTATCCGATTTCAGCAGTTCTAGCTGATCGTCATATTATGGATGTTGTT
GAACCTGGAACTCATGGATCAACTTATGGTGGAAATCCTCTTGCTGCTAAAGTCGCGATT
GCTGCATTAAAAGTTCTTGAAAATGAAAGATTAGCCGAAAATGCTGAAAAAATGGGAAAA
ATATTAAGACAAGGGTTGAGTGAATTGGACAAAGACATTGTATTGGCTTATCGAGGCAAA
GGTTTATTGAATGCGATTGTTATCAATAATGAGAGAATTGATGCATTTGATTTGTGCTTA
AAACTCAAGGAAAATGGTTTATTATCAAAACCAACACATGATAATATTCTCAGACTTGCG
CCACCATTGATTATTACTGAAGAACAGATCAATGAATCTCTTGAAATTATCAGAAATACA
TTGAAAGAGATCAAGTAA

>g14829.t2 Gene=g14829 Length=212
MAEPIQGEAGVVVPSDGYLTKVRELCTKHNVLFIADEIQTGLGRTGRRLAVDHENVRPDI
IVLGKALSGGVYPISAVLADRHIMDVVEPGTHGSTYGGNPLAAKVAIAALKVLENERLAE
NAEKMGKILRQGLSELDKDIVLAYRGKGLLNAIVINNERIDAFDLCLKLKENGLLSKPTH
DNILRLAPPLIITEEQINESLEIIRNTLKEIK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g14829.t2 CDD cd00610 OAT_like 1 208 9.0072E-94
7 g14829.t2 Coils Coil Coil 197 212 -
6 g14829.t2 Gene3D G3DSA:3.40.640.10 - 1 116 1.4E-50
2 g14829.t2 PANTHER PTHR11986 AMINOTRANSFERASE CLASS III 1 210 1.1E-95
3 g14829.t2 PANTHER PTHR11986:SF18 ORNITHINE AMINOTRANSFERASE, MITOCHONDRIAL 1 210 1.1E-95
1 g14829.t2 Pfam PF00202 Aminotransferase class-III 2 208 3.0E-72
5 g14829.t2 ProSitePatterns PS00600 Aminotransferases class-III pyridoxal-phosphate attachment site. 33 70 -
4 g14829.t2 SUPERFAMILY SSF53383 PLP-dependent transferases 1 210 4.39E-73

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:0004587 ornithine-oxo-acid transaminase activity MF
GO:0008483 transaminase activity MF
GO:0003824 catalytic activity MF
GO:0030170 pyridoxal phosphate binding 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