Gene loci information

Transcript annotation

  • This transcript has been annotated as Aspartate 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_1 g13095 g13095.t3 TSS g13095.t3 27932619 27932619
chr_1 g13095 g13095.t3 isoform g13095.t3 27932662 27933858
chr_1 g13095 g13095.t3 exon g13095.t3.exon1 27932662 27932720
chr_1 g13095 g13095.t3 cds g13095.t3.CDS1 27932662 27932720
chr_1 g13095 g13095.t3 exon g13095.t3.exon2 27933012 27933109
chr_1 g13095 g13095.t3 cds g13095.t3.CDS2 27933012 27933109
chr_1 g13095 g13095.t3 exon g13095.t3.exon3 27933246 27933637
chr_1 g13095 g13095.t3 cds g13095.t3.CDS3 27933246 27933637
chr_1 g13095 g13095.t3 exon g13095.t3.exon4 27933765 27933858
chr_1 g13095 g13095.t3 cds g13095.t3.CDS4 27933765 27933857
chr_1 g13095 g13095.t3 TTS g13095.t3 27934761 27934761

Sequences

>g13095.t3 Gene=g13095 Length=643
ATGTCTTCTAAACTTTTGCAAAATAAAGGGTTGACAAGTATTTTAGCAACGAGATGCAGC
TCATGGTGGAGTTCTGTTCAAATGGGACCACCTGATGCAATTCTCGGTGTTACAGAAGCA
TTTAAAAAGGATACAAATCCTAAGAAGATCAACTTGGGCGCTTATCGCGATGATAATGGA
AAACCTTATGTTTTACCTAGCGTTCAAAAGGCCGAAGAATTATTGGCAAAGAAAGCTTTA
GATAAAGAATATGCCCCGATTTCTGGACCTGCTGACTTTTGTAAATTGAGTATTGAATTG
GCATTGGGAGAAAGTGAAGAACTCAAAGCCGGATTGAATGCTACAGTTCAAGGAATTTCA
GGAACTGGCTCATTGCGTGTTGGCGGCGCTTTCTTGGCAAGTTTCTTCCCTGGACCTAAA
GAAATTTATCTGCCAACACCATCATGGGGTAATCATACACCAATTTTCAAACACTCAGGA
CTTGGTGTTAAACAGTACAAATATTACGATCCAAAAACATGTGGCTTAGACTTTCAAGGA
GCTCTGGACAAAATCCCTGAACGTTCAATTATTTTGCTTCACGCTTGTGCTCATAATCCT
ACTGGTGTAGACCCAACGCCAGAACAATGGCAAGAGTTATCGG

>g13095.t3 Gene=g13095 Length=214
MSSKLLQNKGLTSILATRCSSWWSSVQMGPPDAILGVTEAFKKDTNPKKINLGAYRDDNG
KPYVLPSVQKAEELLAKKALDKEYAPISGPADFCKLSIELALGESEELKAGLNATVQGIS
GTGSLRVGGAFLASFFPGPKEIYLPTPSWGNHTPIFKHSGLGVKQYKYYDPKTCGLDFQG
ALDKIPERSIILLHACAHNPTGVDPTPEQWQELS

Protein features from InterProScan

Transcript Database ID Name Start End E.value
5 g13095.t3 Gene3D G3DSA:3.90.1150.10 Aspartate Aminotransferase 26 78 0
6 g13095.t3 Gene3D G3DSA:3.40.640.10 - 79 213 0
2 g13095.t3 PANTHER PTHR11879 ASPARTATE AMINOTRANSFERASE 9 213 0
3 g13095.t3 PANTHER PTHR11879:SF39 ASPARTATE AMINOTRANSFERASE, MITOCHONDRIAL 9 213 0
1 g13095.t3 Pfam PF00155 Aminotransferase class I and II 50 213 0
4 g13095.t3 SUPERFAMILY SSF53383 PLP-dependent transferases 21 213 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:0009058 biosynthetic process BP
GO:0006520 cellular amino acid metabolic process BP
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