General information for g13830.t3
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.t3 | TTS | g13830.t3 | 32622485 | 32622485 |
| chr_1 | g13830 | g13830.t3 | isoform | g13830.t3 | 32622968 | 32624031 |
| chr_1 | g13830 | g13830.t3 | exon | g13830.t3.exon1 | 32622968 | 32623762 |
| chr_1 | g13830 | g13830.t3 | cds | g13830.t3.CDS1 | 32622969 | 32623571 |
| chr_1 | g13830 | g13830.t3 | exon | g13830.t3.exon2 | 32623912 | 32624031 |
| chr_1 | g13830 | g13830.t3 | TSS | g13830.t3 | 32624127 | 32624127 |
Sequences
>g13830.t3 Gene=g13830 Length=915
ATGACAACGTTTGCCGAAAAAACTGACAATCCGTTGCGAAAAATTTGGGAAGGTCCGAAA
ATTGACCCGAATAAAGATAAGAAATTGATTACATTACAAATTGGTAAGAAATCGGAGAAT
ATTTTTATGCAGCAAAAGAAAGTATTGAGGCCATAAAAAATGCTCTTGAAAAAGACAATT
TTTCATACACAGTCAGTTCTGGTTTAAAAGCTGCTAGAGAAGCAGTGGCATCATATGTAA
ACAACAATGATAAAAGTGTTCAGGTCAATGATTCTGACAAATGTTTTGATGTAAATTCTG
AGGACGTTATAATGTCAAACGGCTGTTCTACTGCATTAGAAATTTGTTTTCGAGCTCTAG
CAAATCCTAGAGAAAATATTTTAGTTCCACGTCCTTCATGGAATTATTCCACATGGCTAG
AACCTACTGAAATTGTGTCTAAATTCTATAATTTAGATTGCACAAGAAATTGGGAAATTG
ATCTAGAACATCTAGAGTCGCAAATAGATGAATCTACTAGAGCAATTTTAGTTAACAACC
CTGGCAATCCATGTGGAAATGTTTTTAGCAAAGAACATATCCTAAAAATATTAGAAATTG
CAGAAAAACATCAAATACCAATAATTGCTGATGAGGTTTACGAATTTTTTACATTTCCTG
GTATCGAATTTTACTCATTCAGTTCGCTTTCAAAAAATGTTCCAATTTTAACATGCTCAG
GATTAACAAAAAGATTTATAATGCCCGGAATAAGAGTCGGTTGGATTGTCATTCATGATC
GAAATAATCAGTTGAATGATATAAGAAAAGGTCTTTTGAATATAGCAGGAAGAAATTTTT
GGCCCAATTCAACAGCACAAATAGCTTTAACTGAAATCATTAAAAACACACCAAAGGCAT
TTCTTGAAGAAAACG
>g13830.t3 Gene=g13830 Length=201
MSNGCSTALEICFRALANPRENILVPRPSWNYSTWLEPTEIVSKFYNLDCTRNWEIDLEH
LESQIDESTRAILVNNPGNPCGNVFSKEHILKILEIAEKHQIPIIADEVYEFFTFPGIEF
YSFSSLSKNVPILTCSGLTKRFIMPGIRVGWIVIHDRNNQLNDIRKGLLNIAGRNFWPNS
TAQIALTEIIKNTPKAFLEEN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g13830.t3 | CDD | cd00609 | AAT_like | 1 | 201 | 2.81619E-51 |
| 6 | g13830.t3 | Coils | Coil | Coil | 51 | 71 | - |
| 5 | g13830.t3 | Gene3D | G3DSA:3.40.640.10 | - | 1 | 193 | 6.1E-53 |
| 2 | g13830.t3 | PANTHER | PTHR45744 | TYROSINE AMINOTRANSFERASE | 1 | 200 | 3.1E-70 |
| 3 | g13830.t3 | PANTHER | PTHR45744:SF2 | TYROSINE AMINOTRANSFERASE | 1 | 200 | 3.1E-70 |
| 1 | g13830.t3 | Pfam | PF00155 | Aminotransferase class I and II | 1 | 192 | 1.3E-36 |
| 4 | g13830.t3 | SUPERFAMILY | SSF53383 | PLP-dependent transferases | 2 | 200 | 1.02E-47 |
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: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