General information for g17483.t41
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.t41 | TSS | g17483.t41 | 13659535 | 13659535 |
| chr_4 | g17483 | g17483.t41 | isoform | g17483.t41 | 13659588 | 13661346 |
| chr_4 | g17483 | g17483.t41 | exon | g17483.t41.exon1 | 13659588 | 13659651 |
| chr_4 | g17483 | g17483.t41 | exon | g17483.t41.exon2 | 13659877 | 13659995 |
| chr_4 | g17483 | g17483.t41 | cds | g17483.t41.CDS1 | 13659970 | 13659995 |
| chr_4 | g17483 | g17483.t41 | exon | g17483.t41.exon3 | 13660046 | 13660095 |
| chr_4 | g17483 | g17483.t41 | cds | g17483.t41.CDS2 | 13660046 | 13660095 |
| chr_4 | g17483 | g17483.t41 | exon | g17483.t41.exon4 | 13660215 | 13660591 |
| chr_4 | g17483 | g17483.t41 | cds | g17483.t41.CDS3 | 13660215 | 13660591 |
| chr_4 | g17483 | g17483.t41 | exon | g17483.t41.exon5 | 13660656 | 13660708 |
| chr_4 | g17483 | g17483.t41 | cds | g17483.t41.CDS4 | 13660656 | 13660708 |
| chr_4 | g17483 | g17483.t41 | exon | g17483.t41.exon6 | 13660794 | 13661195 |
| chr_4 | g17483 | g17483.t41 | cds | g17483.t41.CDS5 | 13660794 | 13661195 |
| chr_4 | g17483 | g17483.t41 | exon | g17483.t41.exon7 | 13661253 | 13661346 |
| chr_4 | g17483 | g17483.t41 | cds | g17483.t41.CDS6 | 13661253 | 13661346 |
| chr_4 | g17483 | g17483.t41 | TTS | g17483.t41 | 13661511 | 13661511 |
Sequences
>g17483.t41 Gene=g17483 Length=1159
ATGGATGTGCCAATTCCGGAAATTTTACAGACACCAATGGAAGTTGATGAAATGATAATG
ACAGGTGCTGGACCTTCAAATTATCATCCAAGGATAAGACATGCAATGTCATTACCTGTT
CTTGGTCATCTTCATCCTAAAACATTTAAAATCATGGATGACATTAAAATTGGTGTCAAG
TCATTATCTACTTCAGACAAATAATTCTTACACATTTTGTATCTCTGGACCAGCTATCGA
ATGTGCTTTTGTAAATTTGGTTGAAGACAACGATATAGTTGTTATTGGAAGTAGTGGCTA
TTGGGGAATAAGAGCAGAAGATATTGCAAAACGATTAAATGCTGATGTAAAAGTCATCAA
TAAAGAATTAGGAGAGCAAATTGAATTAGAAGAAACACGAATATTTTTTGAGCAATATCA
TCCAAAAGTTTTCTTTTTGACTCATGGTGAATCAAGCACAGGAATGTTGCAACAAAATTT
GGAACAATTTGGAAATTTATGTCAGGAATTTAATTGTCTTTTTGTGGTTGATTGCGTTAT
AACAGTTGGATGCACTCCAGTTTATGTTGATAAATGGAATATTGATGTTGCTTTTATGGG
AACACAAAAGGTTCTTAATGCACCACCAGGAATTTCTCCGATTACATTCAGTGCACGAGC
TTTGGATAAAATTGCAAAGAGAAAGACACCAGTAAAAAGCTATAATCTTGATGCAGTAAA
CCTTGGTGAATATTGGAATTCTGGAAACCGTCCAAGAATTTATCATCATACAGTTTGTTC
AACATTACTCTACGGTTTGCGAGAGGCAATTGCAATTTTCATTGAGAATGGTGGTTTAGA
AGCTTCTTGGAAAAATCATGAAAATGTTGCCAAACATTTTTATACTCTGTTGGAAAAGAA
TGGTTTGGAATTATTCATTACTGATCCTAAAAATCGTGTTCCATCAGTTACAGCTATAAA
AGTACCTGAGAATATCGATGCAAATGAAATTATAAAACATTCAATGAATGAATACAATGT
TGAAATTAGTGGTGGTATAGGACCAATGTTGGGGGTAGTTTTGAGAGTTGGACTAATGGG
AATAAACTGTAATGAAAAAGTTGCAGAATGCGTTGCAAAAATTCTTATTGAAGCTATAAA
AAAAATGAAAGAAGAATAA
>g17483.t41 Gene=g17483 Length=333
MTLKLVSSHYLLQTNNSYTFCISGPAIECAFVNLVEDNDIVVIGSSGYWGIRAEDIAKRL
NADVKVINKELGEQIELEETRIFFEQYHPKVFFLTHGESSTGMLQQNLEQFGNLCQEFNC
LFVVDCVITVGCTPVYVDKWNIDVAFMGTQKVLNAPPGISPITFSARALDKIAKRKTPVK
SYNLDAVNLGEYWNSGNRPRIYHHTVCSTLLYGLREAIAIFIENGGLEASWKNHENVAKH
FYTLLEKNGLELFITDPKNRVPSVTAIKVPENIDANEIIKHSMNEYNVEISGGIGPMLGV
VLRVGLMGINCNEKVAECVAKILIEAIKKMKEE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g17483.t41 | Coils | Coil | Coil | 328 | 333 | - |
| 7 | g17483.t41 | Gene3D | G3DSA:3.40.640.10 | - | 9 | 224 | 1.3E-112 |
| 6 | g17483.t41 | Gene3D | G3DSA:3.90.1150.10 | Aspartate Aminotransferase | 226 | 323 | 1.3E-112 |
| 2 | g17483.t41 | PANTHER | PTHR21152 | AMINOTRANSFERASE CLASS V | 9 | 329 | 5.6E-95 |
| 3 | g17483.t41 | PANTHER | PTHR21152:SF22 | SERINE–PYRUVATE AMINOTRANSFERASE | 9 | 329 | 5.6E-95 |
| 9 | g17483.t41 | PIRSF | PIRSF000524 | SPT | 3 | 333 | 7.6E-81 |
| 1 | g17483.t41 | Pfam | PF00266 | Aminotransferase class-V | 24 | 315 | 8.6E-38 |
| 5 | g17483.t41 | ProSitePatterns | PS00595 | Aminotransferases class-V pyridoxal-phosphate attachment site. | 142 | 162 | - |
| 4 | g17483.t41 | SUPERFAMILY | SSF53383 | PLP-dependent transferases | 11 | 330 | 2.69E-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. There were no conditions that were differentially expressed