General information for g17483.t13
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Serine–pyruvate aminotransferase.
Parent gene
- The parent gene g17483 is located on chr_4: 13661346..13669405 (+ 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_4 | g17483 | g17483.t13 | TSS | g17483.t13 | 13659535 | 13659535 |
| chr_4 | g17483 | g17483.t13 | isoform | g17483.t13 | 13659588 | 13661343 |
| chr_4 | g17483 | g17483.t13 | exon | g17483.t13.exon1 | 13659588 | 13659651 |
| chr_4 | g17483 | g17483.t13 | exon | g17483.t13.exon2 | 13659877 | 13659991 |
| chr_4 | g17483 | g17483.t13 | cds | g17483.t13.CDS1 | 13659970 | 13659991 |
| chr_4 | g17483 | g17483.t13 | exon | g17483.t13.exon3 | 13660046 | 13660095 |
| chr_4 | g17483 | g17483.t13 | cds | g17483.t13.CDS2 | 13660046 | 13660095 |
| chr_4 | g17483 | g17483.t13 | exon | g17483.t13.exon4 | 13660208 | 13660591 |
| chr_4 | g17483 | g17483.t13 | cds | g17483.t13.CDS3 | 13660208 | 13660591 |
| chr_4 | g17483 | g17483.t13 | exon | g17483.t13.exon5 | 13660656 | 13660708 |
| chr_4 | g17483 | g17483.t13 | cds | g17483.t13.CDS4 | 13660656 | 13660708 |
| chr_4 | g17483 | g17483.t13 | exon | g17483.t13.exon6 | 13660794 | 13661195 |
| chr_4 | g17483 | g17483.t13 | cds | g17483.t13.CDS5 | 13660794 | 13661195 |
| chr_4 | g17483 | g17483.t13 | exon | g17483.t13.exon7 | 13661253 | 13661343 |
| chr_4 | g17483 | g17483.t13 | cds | g17483.t13.CDS6 | 13661253 | 13661343 |
| chr_4 | g17483 | g17483.t13 | TTS | g17483.t13 | 13661511 | 13661511 |
Sequences
>g17483.t13 Gene=g17483 Length=1159
ATGGATGTGCCAATTCCGGAAATTTTACAGACACCAATGGAAGTTGATGAAATGATAATG
ACAGGTGCTGGACCTTCAAATTATCATCCAAGGATAAGACATGCAATGTCATTACCTGTT
CTTGGTCATCTTCATCCTAAAACATTTAAAATCATGGATGACATTAAAATTGGTGTCAAT
TATCTACTTCAGACAAATAATTCTTACACATTTTGTATCTCTGGACCAGTTTTTAGCTAT
CGAATGTGCTTTTGTAAATTTGGTTGAAGACAACGATATAGTTGTTATTGGAAGTAGTGG
CTATTGGGGAATAAGAGCAGAAGATATTGCAAAACGATTAAATGCTGATGTAAAAGTCAT
CAATAAAGAATTAGGAGAGCAAATTGAATTAGAAGAAACACGAATATTTTTTGAGCAATA
TCATCCAAAAGTTTTCTTTTTGACTCATGGTGAATCAAGCACAGGAATGTTGCAACAAAA
TTTGGAACAATTTGGAAATTTATGTCAGGAATTTAATTGTCTTTTTGTGGTTGATTGCGT
TATAACAGTTGGATGCACTCCAGTTTATGTTGATAAATGGAATATTGATGTTGCTTTTAT
GGGAACACAAAAGGTTCTTAATGCACCACCAGGAATTTCTCCGATTACATTCAGTGCACG
AGCTTTGGATAAAATTGCAAAGAGAAAGACACCAGTAAAAAGCTATAATCTTGATGCAGT
AAACCTTGGTGAATATTGGAATTCTGGAAACCGTCCAAGAATTTATCATCATACAGTTTG
TTCAACATTACTCTACGGTTTGCGAGAGGCAATTGCAATTTTCATTGAGAATGGTGGTTT
AGAAGCTTCTTGGAAAAATCATGAAAATGTTGCCAAACATTTTTATACTCTGTTGGAAAA
GAATGGTTTGGAATTATTCATTACTGATCCTAAAAATCGTGTTCCATCAGTTACAGCTAT
AAAAGTACCTGAGAATATCGATGCAAATGAAATTATAAAACATTCAATGAATGAATACAA
TGTTGAAATTAGTGGTGGTATAGGACCAATGTTGGGGGTAGTTTTGAGAGTTGGACTAAT
GGGAATAAACTGTAATGAAAAAGTTGCAGAATGCGTTGCAAAAATTCTTATTGAAGCTAT
AAAAAAAATGAAAGAAGAA
>g17483.t13 Gene=g17483 Length=334
MTLKLVSIIYFRQIILTHFVSLDQFLAIECAFVNLVEDNDIVVIGSSGYWGIRAEDIAKR
LNADVKVINKELGEQIELEETRIFFEQYHPKVFFLTHGESSTGMLQQNLEQFGNLCQEFN
CLFVVDCVITVGCTPVYVDKWNIDVAFMGTQKVLNAPPGISPITFSARALDKIAKRKTPV
KSYNLDAVNLGEYWNSGNRPRIYHHTVCSTLLYGLREAIAIFIENGGLEASWKNHENVAK
HFYTLLEKNGLELFITDPKNRVPSVTAIKVPENIDANEIIKHSMNEYNVEISGGIGPMLG
VVLRVGLMGINCNEKVAECVAKILIEAIKKMKEE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g17483.t13 | Gene3D | G3DSA:3.40.640.10 | - | 27 | 225 | 1.8E-107 |
| 6 | g17483.t13 | Gene3D | G3DSA:3.90.1150.10 | Aspartate Aminotransferase | 227 | 324 | 1.8E-107 |
| 2 | g17483.t13 | PANTHER | PTHR21152 | AMINOTRANSFERASE CLASS V | 15 | 330 | 4.9E-92 |
| 3 | g17483.t13 | PANTHER | PTHR21152:SF22 | SERINE–PYRUVATE AMINOTRANSFERASE | 15 | 330 | 4.9E-92 |
| 8 | g17483.t13 | PIRSF | PIRSF000524 | SPT | 23 | 334 | 3.3E-80 |
| 1 | g17483.t13 | Pfam | PF00266 | Aminotransferase class-V | 27 | 316 | 2.2E-37 |
| 5 | g17483.t13 | ProSitePatterns | PS00595 | Aminotransferases class-V pyridoxal-phosphate attachment site. | 143 | 163 | - |
| 4 | g17483.t13 | SUPERFAMILY | SSF53383 | PLP-dependent transferases | 26 | 331 | 6.05E-70 |
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:0003824 | catalytic activity | 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.
