Gene loci information

Transcript annotation

  • This transcript has been annotated as Aspartate aminotransferase, cytoplasmic.

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 g12991 g12991.t4 TSS g12991.t4 27384347 27384347
chr_1 g12991 g12991.t4 isoform g12991.t4 27384408 27386348
chr_1 g12991 g12991.t4 exon g12991.t4.exon1 27384408 27384519
chr_1 g12991 g12991.t4 cds g12991.t4.CDS1 27384408 27384519
chr_1 g12991 g12991.t4 exon g12991.t4.exon2 27385237 27386213
chr_1 g12991 g12991.t4 cds g12991.t4.CDS2 27385237 27386213
chr_1 g12991 g12991.t4 exon g12991.t4.exon3 27386289 27386348
chr_1 g12991 g12991.t4 cds g12991.t4.CDS3 27386289 27386348
chr_1 g12991 g12991.t4 TTS g12991.t4 27386632 27386632

Sequences

>g12991.t4 Gene=g12991 Length=1149
ATGGCAAGCATTTTCGATGGCATCGAGAAAGGACCTCCAATTGAAGTATTTGCATTAAAT
AAACTCTTCCTTGAAGACACTGATAGCAGAAAAGTCAATCTTGGTGTCGGAGCCTATCGT
ACGGAAGAAGGAAAACCTTGGGTTTTGCCAGTTGTAAAAAAGGCAGAAAAGGCAGTTGTC
GATGATGACTCTTTGAATCATGAGTATCTTCCAGTGCTTGGTCTAGATACTTATGCATCA
GCAGCAACTGCACTTTTGCTCGGTGAAGACTCAATTCAAATTAAAAACAAAAATGCATTT
GGTATTCAAACATTGTCTGGTACAGGTGCTTTACGTTTGGGAGCTGAATTTCTTGCTCGT
GTAATGGGCAGGAGAGTTTTTTACTACTCAGAACCTACATGGGAAAATCATCAAAAAGTT
TTTCTTAGTGCTGGTTTTACTGATGGACATGCTTATCGTTACTGGGATCCTACAACTCGT
GGTATTGATTTTGATGGATTGATTGCCGATTTAAAAAAAGCTCCTGAAGGTGCTGTAATC
ATTTTACATGCTTGTGCTCATAATCCAACTGGATGTGATCCAACAAAAGAGCAATGGGTT
AAAATTGCTGATATTATTGAAGAAAAGAAACTTTTCCCCTTCTTTGATTCGGCCTATCAA
GGCTTTGCAAGTGGAGATCCAGTTCATGATGCTTTCGCTGTTCGTTATTTTGTTGAACGC
GGTTTCGAAATTTTCTGCTCACAATCATTTGCCAAAAATTTTGGTTTGTATAATGAACGT
ATTGGAAACTTGACTGTGGTTCAAAAAAATCCAGCAACTTCAGCAGCAATTCAATCACGA
ATGACTTTGCTCGTGAGATTTATGTATTCGAACCCACCAGCTTTTGGTGGTCGAATTGTT
GGAAAAGTACTCAACTCACCAGAATTGCGTCAAGAATGGATGGACTCTATTAAAATTATG
TCATCGAGAATCATTAAAATGCGTAAATTGTTGAGAGAGGAATTGGAAAACTTAAAAACA
CCAGGAACATGGGAGCACATAACACAACAAATTGGAATGTTCTCTTATACAGGATTAACT
GAAGCACAAAAAAATTACAAATATGTTGCGCAATCAATTTATGATGCCATACAAGCCACT
AAGGTATAA

>g12991.t4 Gene=g12991 Length=382
MASIFDGIEKGPPIEVFALNKLFLEDTDSRKVNLGVGAYRTEEGKPWVLPVVKKAEKAVV
DDDSLNHEYLPVLGLDTYASAATALLLGEDSIQIKNKNAFGIQTLSGTGALRLGAEFLAR
VMGRRVFYYSEPTWENHQKVFLSAGFTDGHAYRYWDPTTRGIDFDGLIADLKKAPEGAVI
ILHACAHNPTGCDPTKEQWVKIADIIEEKKLFPFFDSAYQGFASGDPVHDAFAVRYFVER
GFEIFCSQSFAKNFGLYNERIGNLTVVQKNPATSAAIQSRMTLLVRFMYSNPPAFGGRIV
GKVLNSPELRQEWMDSIKIMSSRIIKMRKLLREELENLKTPGTWEHITQQIGMFSYTGLT
EAQKNYKYVAQSIYDAIQATKV

Protein features from InterProScan

Transcript Database ID Name Start End E.value
11 g12991.t4 CDD cd00609 AAT_like 32 361 1.11166E-43
9 g12991.t4 Gene3D G3DSA:3.90.1150.10 Aspartate Aminotransferase 8 374 4.2E-153
10 g12991.t4 Gene3D G3DSA:3.40.640.10 - 64 306 4.2E-153
2 g12991.t4 PANTHER PTHR11879 ASPARTATE AMINOTRANSFERASE 2 374 1.1E-156
6 g12991.t4 PRINTS PR00799 Aspartate aminotransferase signature 180 199 4.2E-33
5 g12991.t4 PRINTS PR00799 Aspartate aminotransferase signature 211 223 4.2E-33
4 g12991.t4 PRINTS PR00799 Aspartate aminotransferase signature 279 304 4.2E-33
3 g12991.t4 PRINTS PR00799 Aspartate aminotransferase signature 347 365 4.2E-33
1 g12991.t4 Pfam PF00155 Aminotransferase class I and II 30 365 3.1E-79
8 g12991.t4 ProSitePatterns PS00105 Aminotransferases class-I pyridoxal-phosphate attachment site. 249 262 -
7 g12991.t4 SUPERFAMILY SSF53383 PLP-dependent transferases 1 374 1.13E-106

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.

Raw TPM values