General information for g13830.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Tyrosine aminotransferase.
Parent gene
- The parent gene g13830 is located on chr_1: 32622968..32624031 (- strand)
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 | g13830 | g13830.t2 | TTS | g13830.t2 | 32622485 | 32622485 |
| chr_1 | g13830 | g13830.t2 | isoform | g13830.t2 | 32622572 | 32624031 |
| chr_1 | g13830 | g13830.t2 | exon | g13830.t2.exon1 | 32622572 | 32622892 |
| chr_1 | g13830 | g13830.t2 | cds | g13830.t2.CDS1 | 32622572 | 32622892 |
| chr_1 | g13830 | g13830.t2 | exon | g13830.t2.exon2 | 32622954 | 32623762 |
| chr_1 | g13830 | g13830.t2 | cds | g13830.t2.CDS2 | 32622954 | 32623571 |
| chr_1 | g13830 | g13830.t2 | exon | g13830.t2.exon3 | 32623912 | 32624031 |
| chr_1 | g13830 | g13830.t2 | TSS | g13830.t2 | 32624127 | 32624127 |
Sequences
>g13830.t2 Gene=g13830 Length=1250
ATGACAACGTTTGCCGAAAAAACTGACAATCCGTTGCGAAAAATTTGGGAAGGTCCGAAA
ATTGACCCGAATAAAGATAAGAAATTGATTACATTACAAATTGGTAAGAAATCGGAGAAT
ATTTTTATGCAGCAAAAGAAAGTATTGAGGCCATAAAAAATGCTCTTGAAAAAGACAATT
TTTCATACACAGTCAGTTCTGGTTTAAAAGCTGCTAGAGAAGCAGTGGCATCATATGTAA
ACAACAATGATAAAAGTGTTCAGGTCAATGATTCTGACAAATGTTTTGATGTAAATTCTG
AGGACGTTATAATGTCAAACGGCTGTTCTACTGCATTAGAAATTTGTTTTCGAGCTCTAG
CAAATCCTAGAGAAAATATTTTAGTTCCACGTCCTTCATGGAATTATTCCACATGGCTAG
AACCTACTGAAATTGTGTCTAAATTCTATAATTTAGATTGCACAAGAAATTGGGAAATTG
ATCTAGAACATCTAGAGTCGCAAATAGATGAATCTACTAGAGCAATTTTAGTTAACAACC
CTGGCAATCCATGTGGAAATGTTTTTAGCAAAGAACATATCCTAAAAATATTAGAAATTG
CAGAAAAACATCAAATACCAATAATTGCTGATGAGGTTTACGAATTTTTTACATTTCCTG
GTATCGAATTTTACTCATTCAGTTCGCTTTCAAAAAATGTTCCAATTTTAACATGCTCAG
GATTAACAAAAAGATTTATAATGCCCGGAATAAGAGTCGGTTGGATTGTCATTCATGATC
GAAATAATCAGTTGAATGATATAAGAAAAGGTCTTTTGAATATAGCAGGAAGAAATTTTT
GGCCCAATTCAACAGCACAAATAGCTTTAACTGAAATCATTAAAAACACACCAAAGGCAT
TTCTTGAAGAAAACGCTGCTCGTGTTCATGATCATGCATTATCAGCTTATAAAATATTAC
GAGAAACTCCTGGTTTAATTCCAATATTCCCACGTGGCGGAATGTACATCATGATTAAAA
TTGAACTCGAGAAATTTCCAAAATTCAAAACATGTTTAGAGTTTACACAACAATTGATAA
GGGAGCAAAGCGTTGCAACCTTTCCTGGATATCCGTGCTTCAATTTTCCCGGCTTTTTTA
GAATCGTTTTAACAGTGCCTAAAGAATTAATCATTGAAGCTTGTGAACGTATTAAAGAAT
TTTGTGAACAAAATTGCAAGCAAAGTGAAAAATATTTGAAGAGCGGGTAA
>g13830.t2 Gene=g13830 Length=312
MSNGCSTALEICFRALANPRENILVPRPSWNYSTWLEPTEIVSKFYNLDCTRNWEIDLEH
LESQIDESTRAILVNNPGNPCGNVFSKEHILKILEIAEKHQIPIIADEVYEFFTFPGIEF
YSFSSLSKNVPILTCSGLTKRFIMPGIRVGWIVIHDRNNQLNDIRKGLLNIAGRNFWPNS
TAQIALTEIIKNTPKAFLEENAARVHDHALSAYKILRETPGLIPIFPRGGMYIMIKIELE
KFPKFKTCLEFTQQLIREQSVATFPGYPCFNFPGFFRIVLTVPKELIIEACERIKEFCEQ
NCKQSEKYLKSG
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g13830.t2 | CDD | cd00609 | AAT_like | 1 | 296 | 1.81747E-69 |
| 7 | g13830.t2 | Coils | Coil | Coil | 51 | 71 | - |
| 6 | g13830.t2 | Gene3D | G3DSA:3.40.640.10 | - | 2 | 193 | 7.6E-95 |
| 5 | g13830.t2 | Gene3D | G3DSA:3.90.1150.10 | Aspartate Aminotransferase | 194 | 298 | 7.6E-95 |
| 2 | g13830.t2 | PANTHER | PTHR45744 | TYROSINE AMINOTRANSFERASE | 1 | 305 | 2.8E-104 |
| 3 | g13830.t2 | PANTHER | PTHR45744:SF2 | TYROSINE AMINOTRANSFERASE | 1 | 305 | 2.8E-104 |
| 1 | g13830.t2 | Pfam | PF00155 | Aminotransferase class I and II | 1 | 294 | 3.4E-50 |
| 4 | g13830.t2 | SUPERFAMILY | SSF53383 | PLP-dependent transferases | 2 | 300 | 9.5E-67 |
| 8 | g13830.t2 | TIGRFAM | TIGR01265 | tyr_nico_aTase: tyrosine/nicotianamine family aminotransferase | 2 | 301 | 2.7E-105 |
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.
