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.t11 TTS g13832.t11 32627693 32627693
chr_1 g13832 g13832.t11 isoform g13832.t11 32627774 32630336
chr_1 g13832 g13832.t11 exon g13832.t11.exon1 32627774 32627968
chr_1 g13832 g13832.t11 cds g13832.t11.CDS1 32627931 32627968
chr_1 g13832 g13832.t11 exon g13832.t11.exon2 32628027 32628098
chr_1 g13832 g13832.t11 cds g13832.t11.CDS2 32628027 32628098
chr_1 g13832 g13832.t11 exon g13832.t11.exon3 32628175 32628930
chr_1 g13832 g13832.t11 cds g13832.t11.CDS3 32628175 32628930
chr_1 g13832 g13832.t11 exon g13832.t11.exon4 32628995 32629138
chr_1 g13832 g13832.t11 cds g13832.t11.CDS4 32628995 32629138
chr_1 g13832 g13832.t11 exon g13832.t11.exon5 32629998 32630095
chr_1 g13832 g13832.t11 cds g13832.t11.CDS5 32629998 32630095
chr_1 g13832 g13832.t11 exon g13832.t11.exon6 32630185 32630336
chr_1 g13832 g13832.t11 cds g13832.t11.CDS6 32630185 32630336
chr_1 g13832 g13832.t11 TSS g13832.t11 32630493 32630493

Sequences

>g13832.t11 Gene=g13832 Length=1417
ATGGCAACGAAAGTCGAACAGACGACTAATGAAGTATTGCATTTTATTGGAAATTTTGGT
GCAAGTGAAAAGCCAAAGCCAATCGACAATAAAAGAAAGCTTCTTCGTCGTCAAAGTACT
GTTCGTGATTTAAGATGGAATGTAAAAATAAGTGGATTCGCTCAAAAAACTCATAATCCG
ATCAGAGCAATTGTAGATGGATTGACAATCGTACCTAATCCTGAAAAAAAAATGATTGCA
CTTTCGATTGGTGACCCCACAACTTTTGGAAATTTGCTACCTGCGAATGAAATTCTTGAT
GCCATGAAAAAAGTTATTGATGATAAAAATTTTAATGGTTATGCACCCTCAGTTGGATTC
ATAGAAGCACGAGAAGCAGTTGCTGAGTATTCCGCTCATCAAGGAGTCATAAAAGAAATT
TCTGCAAAAGATGTAATTTTGTGTTCAGGCTGCAGTTGTGCACTCGATCTTTGCATAGCT
GCAATTGCCAATGAAGGACAAAATATTTTGATTCCAAAGCCAGGATTTTCAATTTACAGA
ACTTTAGCGGAAGGTTTTGGAATCGAATGTCGTTCATATAATTTAATTCCAGAGCAAGGT
TGGGAAATTGATTTGGATCATTTGGAAGAATTAATTGATGAAAATACTGCCGCCATTATT
GTTACCAATCCATCAAATCCTTGTGGCAGTGTGTTCAGTAAGCAACACATTTTAGATATT
TTAGAGATTGCTGAGCGTCACTATGTACCTATTATTGCTGATGAAATTTATGAACATTTT
GTATTTCCTGGCAATGAATATTTTTCAATGGCTTCATTGTCAAAAAATGTACCTATATTA
AGCTGTGGTGGTACTACTAAACGATTTTTAGTGCCAGGTTGGCGTTTGGGATGGATTATT
GTTCATGATCGTCATGGAGCATTTAGTGAAGTCAGACAGGGACTCTTAAATTTATCGGCC
AGAATTTTAGGTCCAAATTCACTTGTGCAAGGAGCACTGCCAGCAATTCTTAAAAATACT
CCACAAAAGTTTTATGATGAACTTGTTGAGACACTTCAAAATCATGCTAATATTGCTTAT
TCAATGTTAAAAGAAATTCCTGGTTTAACACCAATTATGCCACAAGGTGCAATGTATATG
ATGGTTCTCCTGGATATGAAAAATTTTCCGGAGTTTCATGATGAACTTGATTTTGTTCAA
TCTCTTGTGGCTGAGCAAGTAAAGTGTCTTTTGTCTTCCCGGAAAATGTTTCGATATTGA
TGATTTCATACGGATTGTACTAACAGTTCCAAAAGAGATGATCATCGAAGCATGTGAACG
AATTCAAGAGTTTTGTGAAAATCATTATCGACCCCCAAAAATTGATGAAGAAATTGACGA
TCTTGCAACAAATTTTATTAAAATTACAGATTTTTGA

>g13832.t11 Gene=g13832 Length=419
MATKVEQTTNEVLHFIGNFGASEKPKPIDNKRKLLRRQSTVRDLRWNVKISGFAQKTHNP
IRAIVDGLTIVPNPEKKMIALSIGDPTTFGNLLPANEILDAMKKVIDDKNFNGYAPSVGF
IEAREAVAEYSAHQGVIKEISAKDVILCSGCSCALDLCIAAIANEGQNILIPKPGFSIYR
TLAEGFGIECRSYNLIPEQGWEIDLDHLEELIDENTAAIIVTNPSNPCGSVFSKQHILDI
LEIAERHYVPIIADEIYEHFVFPGNEYFSMASLSKNVPILSCGGTTKRFLVPGWRLGWII
VHDRHGAFSEVRQGLLNLSARILGPNSLVQGALPAILKNTPQKFYDELVETLQNHANIAY
SMLKEIPGLTPIMPQGAMYMMVLLDMKNFPEFHDELDFVQSLVAEQVKCLLSSRKMFRY

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g13832.t11 CDD cd00609 AAT_like 79 407 9.4646E-80
5 g13832.t11 Gene3D G3DSA:3.90.1150.10 Aspartate Aminotransferase 80 406 4.3E-115
6 g13832.t11 Gene3D G3DSA:3.40.640.10 - 96 340 4.3E-115
2 g13832.t11 PANTHER PTHR45744 TYROSINE AMINOTRANSFERASE 48 409 2.2E-143
3 g13832.t11 PANTHER PTHR45744:SF2 TYROSINE AMINOTRANSFERASE 48 409 2.2E-143
7 g13832.t11 PIRSF PIRSF000517 Tyr_transaminase 21 416 4.5E-152
1 g13832.t11 Pfam PF00155 Aminotransferase class I and II 77 411 1.4E-65
9 g13832.t11 ProSitePatterns PS00105 Aminotransferases class-I pyridoxal-phosphate attachment site. 284 297 -
4 g13832.t11 SUPERFAMILY SSF53383 PLP-dependent transferases 57 408 5.98E-79
10 g13832.t11 TIGRFAM TIGR01264 tyr_amTase_E: tyrosine aminotransferase 46 411 5.5E-167
11 g13832.t11 TIGRFAM TIGR01265 tyr_nico_aTase: tyrosine/nicotianamine family aminotransferase 46 410 1.1E-152

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:0009072 aromatic amino acid family metabolic process BP
GO:0009058 biosynthetic process BP
GO:0006520 cellular amino acid metabolic process BP
GO:0008483 transaminase activity MF
GO:0004838 L-tyrosine:2-oxoglutarate aminotransferase activity MF
GO:0003824 catalytic activity MF
GO:0030170 pyridoxal phosphate binding MF

KEGG

Orthology

Pathway

  • This transcript belongs to the following pathways

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