General information for g13832.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Tyrosine aminotransferase.
Parent gene
- The parent gene g13832 is located on chr_1: 32628734..32630336 (- 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 | g13832 | g13832.t3 | TTS | g13832.t3 | 32627693 | 32627693 |
| chr_1 | g13832 | g13832.t3 | isoform | g13832.t3 | 32627774 | 32628922 |
| chr_1 | g13832 | g13832.t3 | exon | g13832.t3.exon1 | 32627774 | 32627968 |
| chr_1 | g13832 | g13832.t3 | cds | g13832.t3.CDS1 | 32627774 | 32627968 |
| chr_1 | g13832 | g13832.t3 | exon | g13832.t3.exon2 | 32628031 | 32628098 |
| chr_1 | g13832 | g13832.t3 | cds | g13832.t3.CDS2 | 32628031 | 32628098 |
| chr_1 | g13832 | g13832.t3 | exon | g13832.t3.exon3 | 32628175 | 32628922 |
| chr_1 | g13832 | g13832.t3 | cds | g13832.t3.CDS3 | 32628175 | 32628517 |
| chr_1 | g13832 | g13832.t3 | TSS | g13832.t3 | NA | NA |
Sequences
>g13832.t3 Gene=g13832 Length=1011
GGAGTCATAAAAGAAATTTCTGCAAAAGATGTAATTTTGTGTTCAGGCTGCAGTTGTGCA
CTCGATCTTTGCATAGCTGCAATTGCCAATGAAGGACAAAATATTTTGATTCCAAAGCCA
GGATTTTCAATTTACAGAACTTTAGCGGAAGGTTTTGGAATCGAATGTCGTTCATATAAT
TTAATTCCAGAGCAAGGTTGGGAAATTGATTTGGATCATTTGGAAGAATTAATTGATGAA
AATACTGCCGCCATTATTGTTACCAATCCATCAAATCCTTGTGGCAGTGTGTTCAGTAAG
CAACACATTTTAGATATTTTAGAGATTGCTGAGCGTCACTATGTACCTATTATTGCTGAT
GAAATTTATGAACATTTTGTATTTCCTGGCAATGAATATTTTTCAATGGCTTCATTGTCA
AAAAATGTACCTATATTAAGCTGTGGTGGTACTACTAAACGATTTTTAGTGCCAGGTTGG
CGTTTGGGATGGATTATTGTTCATGATCGTCATGGAGCATTTAGTGAAGTCAGACAGGGA
CTCTTAAATTTATCGGCCAGAATTTTAGGTCCAAATTCACTTGTGCAAGGAGCACTGCCA
GCAATTCTTAAAAATACTCCACAAAAGTTTTATGATGAACTTGTTGAGACACTTCAAAAT
CATGCTAATATTGCTTATTCAATGTTAAAAGAAATTCCTGGTTTAACACCAATTATGCCA
CAAGGTGCAATGTATATGATGGTTCTCCTGGATATGAAAAATTTTCCGGAGTTTCATGAT
GAACTTGATTTTGTTCAATCTCTTGTGGCTGAGCAAAGTGTCTTTTGTCTTCCCGGAAAA
TGTTTCGATATTGATGATTTCATACGGATTGTACTAACAGTTCCAAAAGAGATGATCATC
GAAGCATGTGAACGAATTCAAGAGTTTTGTGAAAATCATTATCGACCCCCAAAAATTGAT
GAAGAAATTGACGATCTTGCAACAAATTTTATTAAAATTACAGATTTTTGA
>g13832.t3 Gene=g13832 Length=201
MASLSKNVPILSCGGTTKRFLVPGWRLGWIIVHDRHGAFSEVRQGLLNLSARILGPNSLV
QGALPAILKNTPQKFYDELVETLQNHANIAYSMLKEIPGLTPIMPQGAMYMMVLLDMKNF
PEFHDELDFVQSLVAEQSVFCLPGKCFDIDDFIRIVLTVPKEMIIEACERIQEFCENHYR
PPKIDEEIDDLATNFIKITDF
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g13832.t3 | CDD | cd00609 | AAT_like | 1 | 173 | 1.11249E-29 |
| 7 | g13832.t3 | Gene3D | G3DSA:3.40.640.10 | - | 1 | 54 | 3.2E-6 |
| 6 | g13832.t3 | Gene3D | G3DSA:3.90.1150.10 | Aspartate Aminotransferase | 55 | 180 | 9.0E-48 |
| 2 | g13832.t3 | PANTHER | PTHR45744 | TYROSINE AMINOTRANSFERASE | 1 | 180 | 1.1E-70 |
| 3 | g13832.t3 | PANTHER | PTHR45744:SF2 | TYROSINE AMINOTRANSFERASE | 1 | 180 | 1.1E-70 |
| 1 | g13832.t3 | Pfam | PF00155 | Aminotransferase class I and II | 3 | 171 | 1.4E-25 |
| 5 | g13832.t3 | ProSitePatterns | PS00105 | Aminotransferases class-I pyridoxal-phosphate attachment site. | 15 | 28 | - |
| 4 | g13832.t3 | SUPERFAMILY | SSF53383 | PLP-dependent transferases | 3 | 178 | 2.69E-31 |
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.
