Gene loci information

Transcript annotation

  • This transcript has been annotated as Tyrosine 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 g13832 g13832.t16 TTS g13832.t16 32627693 32627693
chr_1 g13832 g13832.t16 isoform g13832.t16 32628313 32630336
chr_1 g13832 g13832.t16 exon g13832.t16.exon1 32628313 32628930
chr_1 g13832 g13832.t16 cds g13832.t16.CDS1 32628314 32628930
chr_1 g13832 g13832.t16 exon g13832.t16.exon2 32628995 32629138
chr_1 g13832 g13832.t16 cds g13832.t16.CDS2 32628995 32629085
chr_1 g13832 g13832.t16 exon g13832.t16.exon3 32629994 32630095
chr_1 g13832 g13832.t16 exon g13832.t16.exon4 32630185 32630336
chr_1 g13832 g13832.t16 TSS g13832.t16 32630493 32630493

Sequences

>g13832.t16 Gene=g13832 Length=1016
ATGGCAACGAAAGTCGAACAGACGACTAATGAAGTATTGCATTTTATTGGAAATTTTGGT
GCAAGTGAAAAGCCAAAGCCAATCGACAATAAAAGAAAGCTTCTTCGTCGTCAAAGTACT
GTTCGTGATTTAAGATGGAATGTAAAAATAAGTGGATTCGCTCAAAAAACTCATAATCCG
ATCAGAGCAATTGTAGATGGATTGACAATCGTACCTAATCCTGAAAAAAAAATGATTGCA
CTTTCGATTGGTAAGTGACCCCACAACTTTTGGAAATTTGCTACCTGCGAATGAAATTCT
TGATGCCATGAAAAAAGTTATTGATGATAAAAATTTTAATGGTTATGCACCCTCAGTTGG
ATTCATAGAAGCACGAGAAGCAGTTGCTGAGTATTCCGCTCATCAAGGAGTCATAAAAGA
AATTTCTGCAAAAGATGTAATTTTGTGTTCAGGCTGCAGTTGTGCACTCGATCTTTGCAT
AGCTGCAATTGCCAATGAAGGACAAAATATTTTGATTCCAAAGCCAGGATTTTCAATTTA
CAGAACTTTAGCGGAAGGTTTTGGAATCGAATGTCGTTCATATAATTTAATTCCAGAGCA
AGGTTGGGAAATTGATTTGGATCATTTGGAAGAATTAATTGATGAAAATACTGCCGCCAT
TATTGTTACCAATCCATCAAATCCTTGTGGCAGTGTGTTCAGTAAGCAACACATTTTAGA
TATTTTAGAGATTGCTGAGCGTCACTATGTACCTATTATTGCTGATGAAATTTATGAACA
TTTTGTATTTCCTGGCAATGAATATTTTTCAATGGCTTCATTGTCAAAAAATGTACCTAT
ATTAAGCTGTGGTGGTACTACTAAACGATTTTTAGTGCCAGGTTGGCGTTTGGGATGGAT
TATTGTTCATGATCGTCATGGAGCATTTAGTGAAGTCAGACAGGGACTCTTAAATTTATC
GGCCAGAATTTTAGGTCCAAATTCACTTGTGCAAGGAGCACTGCCAGCAATTCTTA

>g13832.t16 Gene=g13832 Length=236
MKKVIDDKNFNGYAPSVGFIEAREAVAEYSAHQGVIKEISAKDVILCSGCSCALDLCIAA
IANEGQNILIPKPGFSIYRTLAEGFGIECRSYNLIPEQGWEIDLDHLEELIDENTAAIIV
TNPSNPCGSVFSKQHILDILEIAERHYVPIIADEIYEHFVFPGNEYFSMASLSKNVPILS
CGGTTKRFLVPGWRLGWIIVHDRHGAFSEVRQGLLNLSARILGPNSLVQGALPAIL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g13832.t16 CDD cd00609 AAT_like 1 236 1.40526E-62
6 g13832.t16 Coils Coil Coil 236 236 -
5 g13832.t16 Gene3D G3DSA:3.40.640.10 - 1 236 2.4E-68
2 g13832.t16 PANTHER PTHR45744 TYROSINE AMINOTRANSFERASE 2 236 2.2E-101
3 g13832.t16 PANTHER PTHR45744:SF2 TYROSINE AMINOTRANSFERASE 2 236 2.2E-101
1 g13832.t16 Pfam PF00155 Aminotransferase class I and II 4 232 4.6E-49
8 g13832.t16 ProSitePatterns PS00105 Aminotransferases class-I pyridoxal-phosphate attachment site. 183 196 -
4 g13832.t16 SUPERFAMILY SSF53383 PLP-dependent transferases 3 236 1.17E-58
9 g13832.t16 TIGRFAM TIGR01265 tyr_nico_aTase: tyrosine/nicotianamine family aminotransferase 1 236 8.2E-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. There were no conditions that were differentially expressed