General information for g15134.t24
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.t24 | TTS | g15134.t24 | 4060216 | 4060216 |
| chr_4 | g15134 | g15134.t24 | isoform | g15134.t24 | 4060285 | 4061544 |
| chr_4 | g15134 | g15134.t24 | exon | g15134.t24.exon1 | 4060285 | 4060872 |
| chr_4 | g15134 | g15134.t24 | cds | g15134.t24.CDS1 | 4060285 | 4060872 |
| chr_4 | g15134 | g15134.t24 | exon | g15134.t24.exon2 | 4060931 | 4061544 |
| chr_4 | g15134 | g15134.t24 | cds | g15134.t24.CDS2 | 4060931 | 4061293 |
| chr_4 | g15134 | g15134.t24 | TSS | g15134.t24 | 4061643 | 4061643 |
Sequences
>g15134.t24 Gene=g15134 Length=1202
ATGGCTCTAAAAGGACTAAAAGTTATTGAAATGGCAGGATTAGCTCCAGTTCCAATGTGT
GGAATGATTTTAGCTGATTTTGGAGCTCAAGTTACAAGAGTTGATAAAGTAAGTAAAAAT
TTAAAATATTTTTTTCAATTTCTGAAGATTCTTAATTGTATTTTTAGATTCCTTTACATC
CATTTGACGTTCTTCAAGGTGGAAAACGAAATATTGCTCTAAACCTAAAAAAACCCAAAG
CTGTAGAAATAATGCGTAAAATGTGCAAAACATCAGATGTCATTATTGAACCATTTCGTC
CTGGTGTGATGGAAAAACTTGGACTTGGTCCAGAAGTGCTTTTGAAAGATAATCCAAAGC
TTATTTATGCACGTTTGACTGGCTTTGGTGCTGATGGTCGTGGAATTTATGCAAATCGTG
CAGGTCATGACATAAATTATATTGCGACTTCTGGTGTTCTTAGCATGTTTGGCAGAAAAG
GTGAAAAACCTTATGCACCAATAAATTTTGCAGCTGATTTTGCTGGTGGTGGAGTTTTAT
GTGCTTTTGGCATTTGTGTTGCACTTTTAGAAAGAAATCGATCAGGATTGGGTCAAATTG
TTGATAGTGCTATGGTTGATGGAAGTGCATACGTTGCAAGTTGGCTTTTTAGATCACGAC
ATTTACCAGTTTGGTGTGGTGAAAGAGGTGAAAATACACTTGATGGTGGTGCACATTTCT
ATGAAACTTATGAGACAAAAGATGGAAAATTTATGGCAGTTGGTGCAATTGAGCCACAAT
TTTATGCTGAATTATTAAAAGGCTTAGAACTCAGTGATGAAGAAATTGAATATAAAAATT
TCGAAGAGAATAAAAAAATTTTTACTGAAATTTTCAAGAAAAAAACTCAAGCTGAATGGT
GTAAAATTTTTGATGGTGTTGATGCATGTGTGACACCAGTAATTCATTGGAATGAAGCAA
ATGAGCATCCACATAATAAAGAAAGACAAGTTTTCAAAGATATTGATGGACTTCATGTAC
CAAATCCAGCACCAAAATTAAGTCGAACACCTGGTGTATCACAATTTGGTGTTGGTCATG
ATTCAGCCACTTTTGAAGTTGTTGAAGAAATTCTGAAAGAAATCGGAATTGAAAAAGACG
AAATGAAAAATTTAATTGAAGAAAAAGTTTTGTGTATTGACGATGGAAAATCAAAATTAT
AA
>g15134.t24 Gene=g15134 Length=316
MRKMCKTSDVIIEPFRPGVMEKLGLGPEVLLKDNPKLIYARLTGFGADGRGIYANRAGHD
INYIATSGVLSMFGRKGEKPYAPINFAADFAGGGVLCAFGICVALLERNRSGLGQIVDSA
MVDGSAYVASWLFRSRHLPVWCGERGENTLDGGAHFYETYETKDGKFMAVGAIEPQFYAE
LLKGLELSDEEIEYKNFEENKKIFTEIFKKKTQAEWCKIFDGVDACVTPVIHWNEANEHP
HNKERQVFKDIDGLHVPNPAPKLSRTPGVSQFGVGHDSATFEVVEEILKEIGIEKDEMKN
LIEEKVLCIDDGKSKL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g15134.t24 | Coils | Coil | Coil | 284 | 304 | - |
| 7 | g15134.t24 | Gene3D | G3DSA:3.40.50.10540 | - | 1 | 149 | 6.7E-41 |
| 6 | g15134.t24 | Gene3D | G3DSA:3.30.1540.10 | - | 150 | 231 | 4.6E-27 |
| 2 | g15134.t24 | PANTHER | PTHR22923 | CEREBELLIN-RELATED | 9 | 313 | 2.1E-99 |
| 3 | g15134.t24 | PANTHER | PTHR22923:SF101 | ALPHA-METHYLACYL-COA RACEMASE | 9 | 313 | 2.1E-99 |
| 1 | g15134.t24 | Pfam | PF02515 | CoA-transferase family III | 1 | 269 | 2.5E-55 |
| 9 | g15134.t24 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 83 | - |
| 11 | g15134.t24 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 84 | 106 | - |
| 10 | g15134.t24 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 107 | 316 | - |
| 5 | g15134.t24 | SUPERFAMILY | SSF89796 | CoA-transferase family III (CaiB/BaiF) | 2 | 307 | 1.7E-78 |
| 4 | g15134.t24 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 84 | 106 | - |
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 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.
