General information for g13117.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Fatty acyl-CoA reductase 1.
Parent gene
- The parent gene g13117 is located on chr_1: 28034844..28036016 (+ 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 | g13117 | g13117.t2 | isoform | g13117.t2 | 28034844 | 28036016 |
| chr_1 | g13117 | g13117.t2 | exon | g13117.t2.exon1 | 28034844 | 28036016 |
| chr_1 | g13117 | g13117.t2 | cds | g13117.t2.CDS1 | 28035306 | 28036016 |
| chr_1 | g13117 | g13117.t2 | TSS | g13117.t2 | NA | NA |
| chr_1 | g13117 | g13117.t2 | TTS | g13117.t2 | NA | NA |
Sequences
>g13117.t2 Gene=g13117 Length=1173
GGTAAGTAAGTTATGTAAAATAAGCAAATTCCTCATAATCTCCTCTCATTTATTGCGCAA
AAAATGCATTCATAGAGTTTAGTGCATGTAAGCACAGCATATAGCAATCCCAATTTGAAG
AATGTAGACGAACAGGTTTATGGAACAACATCAACACCAGATCATCATCTGTTCATTAAT
AGTGTCGGCATTTTACCTGATGAATTTACTGAGACAATTGCCAATCGCTTTAATAAACGA
CATCCAAATACGTATACTTTGACGAAGCATATGGCTGAACATATCGTTCTCGAATATAAT
AATGTGCTTCCTTTGTGTATTGTCCGACCATCGATTGTTACAGCAGCAGTTAATGAGCCT
TATCCTGGTTGGATTGACAATATTTATGGCATCACAGGTTTATAATTTTTGAAATTTAAT
GATTTCTTAATCGCTTTTTATTTATGATCGACAGGCATTTTAATGGAAATTGGAAGAGGA
ACAATCACAACAATAATGGGTGTAGAAGAGGGACTTGTTGATTTAATGCCTGTAGATATT
GTTTGCAATACATTGATCACAGCAGGATGGGCAAACAGTTTTATAAGAACACCGAATGAG
ATCACTGTCTATAATTGTACATCGGGTCATTTCAATCCAATGAATTACAAAGAGCTAAGA
AAGCACATTTTAAAATATTCACTTTTAAATCCATCAAAATACATCGCAATGTATCCAAAT
TTTGTTTATCGAAAAAGTCGATTGATGCACAACATAATTGAAATTTTTATGCATTTTCTA
CCAGCACTCATGTTCGATGTGTTGCTTCGAATGCAAGGCAAAAAGCCAATAATGTTTAAA
ATTGCAAAACGTGTAAAAATAGCACAAGATACTGGAGATTATTTTGTATTAAATGATTGG
AATTTTAATTCGAAAAATTTGAAACGAATAATTCGTGCTGCAAATCAGACACAACTTGAT
GCTAATGAATTTTGCTGCGATGTGACATCTCTAGATTGGGACGATTATATTGGTCGCTAT
ATGATGGGAATTAGAACCTACGTTCTAAAAGACGACATCAGCAGCCTTCCAAAAGCGCGA
CAAAAACTTCAAAAGATTTATTATATGAAACTCTTTCTACAGTTTCTTTTGTTCGCAACC
ATTTACTTTGTTTTTTATGGCATATGGAATTAA
>g13117.t2 Gene=g13117 Length=236
MEIGRGTITTIMGVEEGLVDLMPVDIVCNTLITAGWANSFIRTPNEITVYNCTSGHFNPM
NYKELRKHILKYSLLNPSKYIAMYPNFVYRKSRLMHNIIEIFMHFLPALMFDVLLRMQGK
KPIMFKIAKRVKIAQDTGDYFVLNDWNFNSKNLKRIIRAANQTQLDANEFCCDVTSLDWD
DYIGRYMMGIRTYVLKDDISSLPKARQKLQKIYYMKLFLQFLLFATIYFVFYGIWN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g13117.t2 | CDD | cd09071 | FAR_C | 102 | 195 | 7.24177E-26 |
| 5 | g13117.t2 | Gene3D | G3DSA:3.40.50.720 | - | 3 | 105 | 9.1E-6 |
| 2 | g13117.t2 | PANTHER | PTHR11011:SF65 | FATTY ACYL-COA REDUCTASE-RELATED | 1 | 227 | 3.2E-55 |
| 3 | g13117.t2 | PANTHER | PTHR11011 | MALE STERILITY PROTEIN 2-RELATED | 1 | 227 | 3.2E-55 |
| 1 | g13117.t2 | Pfam | PF03015 | Male sterility protein | 103 | 197 | 3.7E-28 |
| 7 | g13117.t2 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 93 | - |
| 9 | g13117.t2 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 94 | 115 | - |
| 6 | g13117.t2 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 116 | 212 | - |
| 10 | g13117.t2 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 213 | 235 | - |
| 8 | g13117.t2 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 236 | 236 | - |
| 4 | g13117.t2 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 213 | 235 | - |
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:0080019 | fatty-acyl-CoA reductase (alcohol-forming) 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.
