General information for g15134.t25
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Alpha-methylacyl-CoA racemase.
Parent gene
- The parent gene g15134 is located on chr_4: 4060285..4061844 (- 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 | g15134 | g15134.t25 | TTS | g15134.t25 | 4060216 | 4060216 |
| chr_4 | g15134 | g15134.t25 | isoform | g15134.t25 | 4060285 | 4061844 |
| chr_4 | g15134 | g15134.t25 | exon | g15134.t25.exon1 | 4060285 | 4060872 |
| chr_4 | g15134 | g15134.t25 | cds | g15134.t25.CDS1 | 4060285 | 4060872 |
| chr_4 | g15134 | g15134.t25 | exon | g15134.t25.exon2 | 4060931 | 4061377 |
| chr_4 | g15134 | g15134.t25 | cds | g15134.t25.CDS2 | 4060931 | 4061377 |
| chr_4 | g15134 | g15134.t25 | exon | g15134.t25.exon3 | 4061437 | 4061573 |
| chr_4 | g15134 | g15134.t25 | cds | g15134.t25.CDS3 | 4061437 | 4061544 |
| chr_4 | g15134 | g15134.t25 | exon | g15134.t25.exon4 | 4061820 | 4061844 |
| chr_4 | g15134 | g15134.t25 | TSS | g15134.t25 | NA | NA |
Sequences
>g15134.t25 Gene=g15134 Length=1197
ATTAAGTACAAAATAAAATATTTCGAAAGTAAAATTTTATTGAAAAAACAAAGAATGGCT
CTAAAAGGACTAAAAGTTATTGAAATGGCAGGATTAGCTCCAGTTCCAATGTGTGGAATG
ATTTTAGCTGATTTTGGAGCTCAAGTTACAAGAGTTGATAAAATTCCTTTACATCCATTT
GACGTTCTTCAAGGTGGAAAACGAAATATTGCTCTAAACCTAAAAAAACCCAAAGCTGTA
GAAATAATGCGTAAAATGTGCAAAACATCAGATGTCATTATTGAACCATTTCGTCCTGGT
GTGATGGAAAAACTTGGACTTGGTCCAGAAGTGCTTTTGAAAGATAATCCAAAGCTTATT
TATGCACGTTTGACTGGCTTTGGTGCTGATGGTCGTGGAATTTATGCAAATCGTGCAGGT
CATGACATAAATTATATTGCGACTTCTGGTGTTCTTAGCATGTTTGGCAGAAAAGGTGAA
AAACCTTATGCACCAATAAATTTTGCAGCTGATTTTGCTGGTGGTGGAGTTTTATGTGCT
TTTGGCATTTGTGTTGCACTTTTAGAAAGAAATCGATCAGGATTGGGTCAAATTGTTGAT
AGTGCTATGGTTGATGGAAGTGCATACGTTGCAAGTTGGCTTTTTAGATCACGACATTTA
CCAGTTTGGTGTGGTGAAAGAGGTGAAAATACACTTGATGGTGGTGCACATTTCTATGAA
ACTTATGAGACAAAAGATGGAAAATTTATGGCAGTTGGTGCAATTGAGCCACAATTTTAT
GCTGAATTATTAAAAGGCTTAGAACTCAGTGATGAAGAAATTGAATATAAAAATTTCGAA
GAGAATAAAAAAATTTTTACTGAAATTTTCAAGAAAAAAACTCAAGCTGAATGGTGTAAA
ATTTTTGATGGTGTTGATGCATGTGTGACACCAGTAATTCATTGGAATGAAGCAAATGAG
CATCCACATAATAAAGAAAGACAAGTTTTCAAAGATATTGATGGACTTCATGTACCAAAT
CCAGCACCAAAATTAAGTCGAACACCTGGTGTATCACAATTTGGTGTTGGTCATGATTCA
GCCACTTTTGAAGTTGTTGAAGAAATTCTGAAAGAAATCGGAATTGAAAAAGACGAAATG
AAAAATTTAATTGAAGAAAAAGTTTTGTGTATTGACGATGGAAAATCAAAATTATAA
>g15134.t25 Gene=g15134 Length=380
MALKGLKVIEMAGLAPVPMCGMILADFGAQVTRVDKIPLHPFDVLQGGKRNIALNLKKPK
AVEIMRKMCKTSDVIIEPFRPGVMEKLGLGPEVLLKDNPKLIYARLTGFGADGRGIYANR
AGHDINYIATSGVLSMFGRKGEKPYAPINFAADFAGGGVLCAFGICVALLERNRSGLGQI
VDSAMVDGSAYVASWLFRSRHLPVWCGERGENTLDGGAHFYETYETKDGKFMAVGAIEPQ
FYAELLKGLELSDEEIEYKNFEENKKIFTEIFKKKTQAEWCKIFDGVDACVTPVIHWNEA
NEHPHNKERQVFKDIDGLHVPNPAPKLSRTPGVSQFGVGHDSATFEVVEEILKEIGIEKD
EMKNLIEEKVLCIDDGKSKL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g15134.t25 | Coils | Coil | Coil | 348 | 368 | - |
| 6 | g15134.t25 | Gene3D | G3DSA:3.40.50.10540 | - | 3 | 313 | 2.7E-105 |
| 5 | g15134.t25 | Gene3D | G3DSA:3.30.1540.10 | - | 211 | 295 | 2.7E-105 |
| 2 | g15134.t25 | PANTHER | PTHR22923 | CEREBELLIN-RELATED | 1 | 377 | 5.4E-128 |
| 3 | g15134.t25 | PANTHER | PTHR22923:SF101 | ALPHA-METHYLACYL-COA RACEMASE | 1 | 377 | 5.4E-128 |
| 1 | g15134.t25 | Pfam | PF02515 | CoA-transferase family III | 3 | 333 | 1.0E-71 |
| 4 | g15134.t25 | SUPERFAMILY | SSF89796 | CoA-transferase family III (CaiB/BaiF) | 2 | 371 | 7.59E-102 |
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:0008410 | CoA-transferase activity | MF |
KEGG
Orthology
- This transcript has been annotated with K01796 (alpha-methylacyl-CoA racemase)
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.
