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.t5 TSS g12991.t5 27384347 27384347
chr_1 g12991 g12991.t5 isoform g12991.t5 27384408 27386348
chr_1 g12991 g12991.t5 exon g12991.t5.exon1 27384408 27384705
chr_1 g12991 g12991.t5 exon g12991.t5.exon2 27385237 27386348
chr_1 g12991 g12991.t5 cds g12991.t5.CDS1 27385488 27386348
chr_1 g12991 g12991.t5 TTS g12991.t5 27386632 27386632

Sequences

>g12991.t5 Gene=g12991 Length=1410
ATGGCAAGCATTTTCGATGGCATCGAGAAAGGACCTCCAATTGAAGTATTTGCATTAAAT
AAACTCTTCCTTGAAGACACTGATAGCAGAAAAGTCAATCTTGGTGTCGGAGGTGAGCAT
AAATAAAACATAATTACACAATATATTCATAAATTACTTGAAGCTTGTGAGATTATCAAA
TTGCTTTAACTGATAAAAGCTCATTAATCGTTTCATTTCATTCTGAAGATTCCTTTTAAT
TATTTCGACAAAAAATAGTATTGCGGGAGTCTTGTGTGTTTGAAAGGGTCATTTCAAGCC
TATCGTACGGAAGAAGGAAAACCTTGGGTTTTGCCAGTTGTAAAAAAGGCAGAAAAGGCA
GTTGTCGATGATGACTCTTTGAATCATGAGTATCTTCCAGTGCTTGGTCTAGATACTTAT
GCATCAGCAGCAACTGCACTTTTGCTCGGTGAAGACTCAATTCAAATTAAAAACAAAAAT
GCATTTGGTATTCAAACATTGTCTGGTACAGGTGCTTTACGTTTGGGAGCTGAATTTCTT
GCTCGTGTAATGGGCAGGAGAGTTTTTTACTACTCAGAACCTACATGGGAAAATCATCAA
AAAGTTTTTCTTAGTGCTGGTTTTACTGATGGACATGCTTATCGTTACTGGGATCCTACA
ACTCGTGGTATTGATTTTGATGGATTGATTGCCGATTTAAAAAAAGCTCCTGAAGGTGCT
GTAATCATTTTACATGCTTGTGCTCATAATCCAACTGGATGTGATCCAACAAAAGAGCAA
TGGGTTAAAATTGCTGATATTATTGAAGAAAAGAAACTTTTCCCCTTCTTTGATTCGGCC
TATCAAGGCTTTGCAAGTGGAGATCCAGTTCATGATGCTTTCGCTGTTCGTTATTTTGTT
GAACGCGGTTTCGAAATTTTCTGCTCACAATCATTTGCCAAAAATTTTGGTTTGTATAAT
GAACGTATTGGAAACTTGACTGTGGTTCAAAAAAATCCAGCAACTTCAGCAGCAATTCAA
TCACGAATGACTTTGCTCGTGAGATTTATGTATTCGAACCCACCAGCTTTTGGTGGTCGA
ATTGTTGGAAAAGTACTCAACTCACCAGAATTGCGTCAAGAATGGATGGACTCTATTAAA
ATTATGTCATCGAGAATCATTAAAATGCGTAAATTGTTGAGAGAGGAATTGGAAAACTTA
AAAACACCAGGAACATGGGAGCACATAACACAACAAATTGGAATGTTCTCTTATACAGGA
TTAACTGAAGCACAAGTAAAGATTCTCATTGAAAAATATCACATTTACTTACTTGCAAGT
GGACGTATTAATATGTGTGGTCTAAATGAGAAAAATTACAAATATGTTGCGCAATCAATT
TATGATGCCATACAAGCCACTAAGGTATAA

>g12991.t5 Gene=g12991 Length=286
MGRRVFYYSEPTWENHQKVFLSAGFTDGHAYRYWDPTTRGIDFDGLIADLKKAPEGAVII
LHACAHNPTGCDPTKEQWVKIADIIEEKKLFPFFDSAYQGFASGDPVHDAFAVRYFVERG
FEIFCSQSFAKNFGLYNERIGNLTVVQKNPATSAAIQSRMTLLVRFMYSNPPAFGGRIVG
KVLNSPELRQEWMDSIKIMSSRIIKMRKLLREELENLKTPGTWEHITQQIGMFSYTGLTE
AQVKILIEKYHIYLLASGRINMCGLNEKNYKYVAQSIYDAIQATKV

Protein features from InterProScan

Transcript Database ID Name Start End E.value
11 g12991.t5 CDD cd00609 AAT_like 2 269 2.96137E-38
10 g12991.t5 Gene3D G3DSA:3.40.640.10 - 1 195 3.0E-78
9 g12991.t5 Gene3D G3DSA:3.90.1150.10 Aspartate Aminotransferase 196 283 1.1E-34
2 g12991.t5 PANTHER PTHR11879 ASPARTATE AMINOTRANSFERASE 4 281 8.3E-128
5 g12991.t5 PRINTS PR00799 Aspartate aminotransferase signature 59 78 1.3E-34
4 g12991.t5 PRINTS PR00799 Aspartate aminotransferase signature 90 102 1.3E-34
6 g12991.t5 PRINTS PR00799 Aspartate aminotransferase signature 158 183 1.3E-34
3 g12991.t5 PRINTS PR00799 Aspartate aminotransferase signature 226 244 1.3E-34
1 g12991.t5 Pfam PF00155 Aminotransferase class I and II 4 277 3.1E-69
8 g12991.t5 ProSitePatterns PS00105 Aminotransferases class-I pyridoxal-phosphate attachment site. 128 141 -
7 g12991.t5 SUPERFAMILY SSF53383 PLP-dependent transferases 6 282 1.01E-85

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