General information for g158.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Probable phosphoserine aminotransferase.
Parent gene
- The parent gene g158 is located on chr_3: 1438693..1441999 (+ 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_3 | g158 | g158.t1 | TSS | g158.t1 | 1437280 | 1437280 |
| chr_3 | g158 | g158.t1 | isoform | g158.t1 | 1437353 | 1438693 |
| chr_3 | g158 | g158.t1 | exon | g158.t1.exon1 | 1437353 | 1437397 |
| chr_3 | g158 | g158.t1 | cds | g158.t1.CDS1 | 1437353 | 1437397 |
| chr_3 | g158 | g158.t1 | exon | g158.t1.exon2 | 1437450 | 1437580 |
| chr_3 | g158 | g158.t1 | cds | g158.t1.CDS2 | 1437450 | 1437580 |
| chr_3 | g158 | g158.t1 | exon | g158.t1.exon3 | 1437651 | 1438042 |
| chr_3 | g158 | g158.t1 | cds | g158.t1.CDS3 | 1437651 | 1438042 |
| chr_3 | g158 | g158.t1 | exon | g158.t1.exon4 | 1438109 | 1438259 |
| chr_3 | g158 | g158.t1 | cds | g158.t1.CDS4 | 1438109 | 1438259 |
| chr_3 | g158 | g158.t1 | exon | g158.t1.exon5 | 1438327 | 1438693 |
| chr_3 | g158 | g158.t1 | cds | g158.t1.CDS5 | 1438327 | 1438693 |
| chr_3 | g158 | g158.t1 | TTS | g158.t1 | 1438738 | 1438738 |
Sequences
>g158.t1 Gene=g158 Length=1086
ATGGTTATTAATTTTGCCGCAGGACCAGCAAAGCTTCCAGATGAGGTACTAAAAGAAGTG
CAACAAGAATTACTTGATTATAATGGAACAGGAATGTCTGTAATGGAAATGTCGCATAGA
GGCGCTGTTTATACAAAAATTCATGAAGACGCGATTAAATCAATTCGAGAGCTATTGAAT
GTGCCTGATAATTATAAAGTTTTGCTAATGCAGGGTGGTGGCACTGGTCAATTTTCAGCT
GTTTGTATGAATCTCATTGGAAGAACTGGATCAGCTGACTATATTGTCACTGGCTCATGG
TCTCTTAAGGCTTATAAAGAAGCTTCAAAATATGGCACAGCTAATCTTGTCTTTCCTAAA
CCCGACAAATTTACAACTATTCCGAATCAGAGCGAATGGAAATTGAACCCAAATGCCTCG
TATGTCTATTATTGCGACAATGAAACTGTCGATGGTGTCGAATTCGATTTTATTCCAGAG
ACTCATAACATTCCGCTTGTATGTGACATGTCATCCAATTTTATGTCACGAACATTTGAT
GTGTCAAAATTCGGTTTAATTTTTGCAGGTGCCCAGAAAAATATTGGACCTAGTGGTGTC
ACTGTTGTAATTATTAGAGATGACTTGATTGGTCATGCTTTAAAAATCACTCCATCTGTC
TTTGATTACGCTGATGTTGCTAAAAATAATTCAGTAAGCAACACACCGCCTACATTCATA
ATCTATTTTTGCTCACGTGTATTTGAATGGATTAAACGAAATGGTGGTATTGAAGGCATG
AATAAGCTGGCAATGAAAAAATCTTCGTTGATCTATAACACTATTAATAATTCAAATAAC
TTCTACACTTGTCCAGTCGATGAAAGATATCGAAGCCGCATGAATCTTCCATTCAGAATT
AAAGGAGGCGATGAAACATTAGAGAAAGAATTTTTGAAAAAAGCTGAACAACTTGGTATG
ATGCAGCTCAAGGGACATCGTTCTGTGGGTGGAATAAGAACATCACTTTACAATGCAATT
ACTGTCGAAAATGCTGAATTTCTCAATAAGTTTATGAACGAGTTTTATAAAAATAACAAA
ATGTAA
>g158.t1 Gene=g158 Length=361
MVINFAAGPAKLPDEVLKEVQQELLDYNGTGMSVMEMSHRGAVYTKIHEDAIKSIRELLN
VPDNYKVLLMQGGGTGQFSAVCMNLIGRTGSADYIVTGSWSLKAYKEASKYGTANLVFPK
PDKFTTIPNQSEWKLNPNASYVYYCDNETVDGVEFDFIPETHNIPLVCDMSSNFMSRTFD
VSKFGLIFAGAQKNIGPSGVTVVIIRDDLIGHALKITPSVFDYADVAKNNSVSNTPPTFI
IYFCSRVFEWIKRNGGIEGMNKLAMKKSSLIYNTINNSNNFYTCPVDERYRSRMNLPFRI
KGGDETLEKEFLKKAEQLGMMQLKGHRSVGGIRTSLYNAITVENAEFLNKFMNEFYKNNK
M
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g158.t1 | CDD | cd00611 | PSAT_like | 3 | 357 | 0.0 |
| 6 | g158.t1 | Gene3D | G3DSA:3.40.640.10 | - | 15 | 253 | 1.1E-98 |
| 5 | g158.t1 | Gene3D | G3DSA:3.90.1150.10 | Aspartate Aminotransferase | 254 | 359 | 1.7E-39 |
| 3 | g158.t1 | Hamap | MF_00160 | Phosphoserine aminotransferase [serC]. | 1 | 359 | 44.634186 |
| 2 | g158.t1 | PANTHER | PTHR43247 | PHOSPHOSERINE AMINOTRANSFERASE | 2 | 360 | 1.2E-158 |
| 7 | g158.t1 | PIRSF | PIRSF000525 | SerC | 1 | 360 | 2.0E-151 |
| 1 | g158.t1 | Pfam | PF00266 | Aminotransferase class-V | 3 | 346 | 3.2E-54 |
| 9 | g158.t1 | ProSitePatterns | PS00595 | Aminotransferases class-V pyridoxal-phosphate attachment site. | 184 | 203 | - |
| 4 | g158.t1 | SUPERFAMILY | SSF53383 | PLP-dependent transferases | 1 | 357 | 2.67E-114 |
| 10 | g158.t1 | TIGRFAM | TIGR01364 | serC_1: phosphoserine transaminase | 3 | 358 | 9.6E-155 |
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:0004648 | O-phospho-L-serine:2-oxoglutarate aminotransferase activity | MF |
| GO:0006564 | L-serine biosynthetic process | BP |
| GO:0003824 | catalytic activity | MF |
KEGG
Orthology
- This transcript has been annotated with K00831 (phosphoserine aminotransferase)
Pathway
- This transcript belongs to the following pathways
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.
