General information for g12978.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Fatty acid synthase.
Parent gene
- The parent gene g12978 is located on chr_1: 27306733..27307536 (- 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_1 | g12978 | g12978.t2 | isoform | g12978.t2 | 27306733 | 27307536 |
| chr_1 | g12978 | g12978.t2 | exon | g12978.t2.exon1 | 27306733 | 27307536 |
| chr_1 | g12978 | g12978.t2 | cds | g12978.t2.CDS1 | 27307108 | 27307536 |
| chr_1 | g12978 | g12978.t2 | TSS | g12978.t2 | NA | NA |
| chr_1 | g12978 | g12978.t2 | TTS | g12978.t2 | NA | NA |
Sequences
>g12978.t2 Gene=g12978 Length=804
ATGAATAATTCAAGTGAAAAAGGTGATGACATAGTTGTTACAGGAATGTCTGGTCGACTT
CCACAATCACGAAATATTAAAGAATTTGCAACAAATCTTTTCAATAAAGTTGATTTGGTT
GATGATTCTGAAGAGCGTTGGAAGCATGTTTATGATGAACTTCCAAATCGTTTTGGGAAA
ATTTCTGATGTTGATAAGTTTGACTCATCATTCTTCTCAATGTTGAATGTCCAAGCTAAA
TATACAGACCCACAAATGAGAATTCTACTGGAGCATACTTATGAAGCAATTTTGGATGCT
GGTATTAGTCCTCAAACGTTGATAGGAAGTAATACAGGTGTTTTTGTTGGTTGTTGTACA
TCTGATTCAAAAGATAGTTTTATTAATCAAACATATGCTGCACCTCATAGCACTGTTACG
ATCGGGTAAAATTTAATTTTTTTATTAATTTCAAAATAAGTTAGCAAAATTTTCTTTTGT
AGAAATAGCACATTTTCATTTTCTAACCGTGTTTCTTATACACTCGGTTTAAGTGGACCT
TCCTTAACACTCGACACTGCATGCTCAAGCTCTGGTTATGCTCTCGATTGTGCTTTTCAT
TATTTAAATTCAGGTAAATTTTTTAAAATTATATCGAAGTTTTATCAACAAGTGGTTTTT
CTAAAGGAGTTTGTGATGCTGCTATTGTAGCTGGGACTCAATTGACTTTAGTGCCTTCGA
TGTTCTTTGAATATGAATCGTAAATATTCTAGCAATCGACTTGATTAACACAAATTTTTG
AATTTAAACTTATTTTATTTTAGT
>g12978.t2 Gene=g12978 Length=142
MNNSSEKGDDIVVTGMSGRLPQSRNIKEFATNLFNKVDLVDDSEERWKHVYDELPNRFGK
ISDVDKFDSSFFSMLNVQAKYTDPQMRILLEHTYEAILDAGISPQTLIGSNTGVFVGCCT
SDSKDSFINQTYAAPHSTVTIG
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g12978.t2 | Gene3D | G3DSA:3.40.47.10 | - | 7 | 141 | 0.0000 |
| 2 | g12978.t2 | PANTHER | PTHR43775 | FATTY ACID SYNTHASE | 5 | 131 | 0.0000 |
| 3 | g12978.t2 | PANTHER | PTHR43775:SF23 | FATTY ACID SYNTHASE 3 | 5 | 131 | 0.0000 |
| 1 | g12978.t2 | Pfam | PF00109 | Beta-ketoacyl synthase, N-terminal domain | 10 | 125 | 0.0000 |
| 5 | g12978.t2 | SMART | SM00825 | Beta-ketoacyl synthase | 11 | 142 | 0.0051 |
| 4 | g12978.t2 | SUPERFAMILY | SSF53901 | Thiolase-like | 9 | 135 | 0.0000 |
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:0016746 | acyltransferase 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