Gene loci information

Transcript annotation

  • This transcript has been annotated as Branched-chain-amino-acid aminotransferase.

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 g14017 g14017.t5 TSS g14017.t5 34086713 34086713
chr_1 g14017 g14017.t5 isoform g14017.t5 34086920 34092003
chr_1 g14017 g14017.t5 exon g14017.t5.exon1 34086920 34086937
chr_1 g14017 g14017.t5 cds g14017.t5.CDS1 34086920 34086937
chr_1 g14017 g14017.t5 exon g14017.t5.exon2 34090507 34090731
chr_1 g14017 g14017.t5 cds g14017.t5.CDS2 34090507 34090731
chr_1 g14017 g14017.t5 exon g14017.t5.exon3 34090903 34091112
chr_1 g14017 g14017.t5 cds g14017.t5.CDS3 34090903 34091112
chr_1 g14017 g14017.t5 exon g14017.t5.exon4 34091460 34092003
chr_1 g14017 g14017.t5 cds g14017.t5.CDS4 34091460 34092002
chr_1 g14017 g14017.t5 TTS g14017.t5 34092658 34092658

Sequences

>g14017.t5 Gene=g14017 Length=997
ATGAGCATTCACGGCAAGACAATGCTACCTTACATTGTAAGGAAAGTCTTTGAAATCCAA
CATAAACTATATCAGCAACAAATTCGTGCATGCAGCACTGGTCGATTGCAAGAAGCATTA
AAGATCGAAGAAGAGCAAGAATTTCCAAAAATCAATGAAATCAAGCAGCCTGAAGAGTCG
TCATTTTACTATCCTGTCGACAAGAAATTCAAACACGACCCCGATATCGGAGAACAATTT
TCATATTCACAATTGCGTGTTCGTTTGGCGGGACCTCATCAATTGCAACCTAAACCTGAA
GCTGATGATCTGCAGTTTGGAAAACTCTTTACTGATCATATGTTTAAAGTCGCTTACCAT
AAGCGTCTGGGTGGTTGGCAAGTACCCGAAATTATGCCACTCGAAAATCTTGTTTTACAT
CCTGCAGCTAAAGTTTTACATTATGCTGTTGAGCTGTTTGAAGGCATGAAAGCATTCAGA
GGCGTTGATGGGCGTATTCGTCTATTCCGACCTGAAATGAATATGGCTCGAATGAATGCA
AGTGCACAACGCTCAGGTCTCCCCACTTTTGAACCTGAAGAATTTGTTAAATGCATTTCA
AGACTCGTCTCAATTGACCAGGAATGGGTGCCGCATACAGAATCTGCAAGCTTATACATT
CGACCAACACTTATTGGAATTGAACCAACTCTTGGTGTTGCATCGTCTGAATCAGCACTA
TTGTATACGATTTTGTCACCTGTTGGTGGATATTTTGCGGGAAATAGTGGCACATCAACT
GGTGTTTCTTTATTAGCAGATCCTCAATATACGAGATCATGGCCGGGTGGAGTTGGTGAT
AGAAAAATGGGCTCAAACTATGCACCAACTATTCATGTGCAAAAAGAAGCTTCTAAACAA
GGTTTTCAACAAGTATTGTGGTTATATGGTGATGATCATCAACTAACAGAAGTTGGTACA
ATGAACATTTTTGTTCTATTAATTAATGATCGTGGAG

>g14017.t5 Gene=g14017 Length=332
MSIHGKTMLPYIVRKVFEIQHKLYQQQIRACSTGRLQEALKIEEEQEFPKINEIKQPEES
SFYYPVDKKFKHDPDIGEQFSYSQLRVRLAGPHQLQPKPEADDLQFGKLFTDHMFKVAYH
KRLGGWQVPEIMPLENLVLHPAAKVLHYAVELFEGMKAFRGVDGRIRLFRPEMNMARMNA
SAQRSGLPTFEPEEFVKCISRLVSIDQEWVPHTESASLYIRPTLIGIEPTLGVASSESAL
LYTILSPVGGYFAGNSGTSTGVSLLADPQYTRSWPGGVGDRKMGSNYAPTIHVQKEASKQ
GFQQVLWLYGDDHQLTEVGTMNIFVLLINDRG

Protein features from InterProScan

Transcript Database ID Name Start End E.value
4 g14017.t5 Gene3D G3DSA:3.30.470.10 - 79 258 0
5 g14017.t5 Gene3D G3DSA:3.20.10.10 - 259 332 0
2 g14017.t5 PANTHER PTHR11825 SUBGROUP IIII AMINOTRANSFERASE 70 331 0
1 g14017.t5 Pfam PF01063 Amino-transferase class IV 152 325 0
3 g14017.t5 SUPERFAMILY SSF56752 D-aminoacid aminotransferase-like PLP-dependent enzymes 92 329 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: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.

Raw TPM values