General information for g5966.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative fatty acyl-CoA reductase CG5065.
Parent gene
- The parent gene g5966 is located on chr_2: 13093381..13095360 (- 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_2 | g5966 | g5966.t4 | TTS | g5966.t4 | 13091231 | 13091231 |
| chr_2 | g5966 | g5966.t4 | isoform | g5966.t4 | 13091350 | 13095360 |
| chr_2 | g5966 | g5966.t4 | exon | g5966.t4.exon1 | 13091350 | 13091697 |
| chr_2 | g5966 | g5966.t4 | exon | g5966.t4.exon2 | 13091754 | 13091885 |
| chr_2 | g5966 | g5966.t4 | exon | g5966.t4.exon3 | 13091950 | 13092189 |
| chr_2 | g5966 | g5966.t4 | exon | g5966.t4.exon4 | 13092251 | 13092400 |
| chr_2 | g5966 | g5966.t4 | cds | g5966.t4.CDS1 | 13092338 | 13092400 |
| chr_2 | g5966 | g5966.t4 | exon | g5966.t4.exon5 | 13092529 | 13092577 |
| chr_2 | g5966 | g5966.t4 | cds | g5966.t4.CDS2 | 13092529 | 13092577 |
| chr_2 | g5966 | g5966.t4 | exon | g5966.t4.exon6 | 13092800 | 13092885 |
| chr_2 | g5966 | g5966.t4 | cds | g5966.t4.CDS3 | 13092800 | 13092885 |
| chr_2 | g5966 | g5966.t4 | exon | g5966.t4.exon7 | 13092956 | 13093381 |
| chr_2 | g5966 | g5966.t4 | cds | g5966.t4.CDS4 | 13092956 | 13093381 |
| chr_2 | g5966 | g5966.t4 | exon | g5966.t4.exon8 | 13094409 | 13094612 |
| chr_2 | g5966 | g5966.t4 | cds | g5966.t4.CDS5 | 13094409 | 13094606 |
| chr_2 | g5966 | g5966.t4 | exon | g5966.t4.exon9 | 13095282 | 13095360 |
| chr_2 | g5966 | g5966.t4 | TSS | g5966.t4 | 13095452 | 13095452 |
Sequences
>g5966.t4 Gene=g5966 Length=1714
ATTTTACAATTACACTTCATTCGAGTAAGATCTCACTCTTATCGTGCTCGTATTTTCAAG
GATTTTACCTCAACAATAAATCATCATGGCAAAACTAACAAAAATACAGCAATTTTATAA
AAATAAAACAATCTTCATTACTGGAGCTTCAGGATTTATGGGCAAATGTCTTCTCGAAAA
GCTACTCTATTCATGCTCTGATGTTAAACGCATAATGATTCTAATGCGAAGCAAACGTGG
AAAGAGCGCTCAACAGAGAGTTCAAGAGTTTACAACCCTTGCGATGTTTCAAAGAATAAA
AGATGAGAAGCCAGAAGTGCTTGAGAAAATTATTGCAGTATTCGGTGACATTACTCAAGA
GAATTTAGGTTTGAGTGAGGAACATTTGAAGATGGTATTGGATGAATCAGAGTTGGTGTT
TCATATGGCAGCAAGTTTAAAACTTGAAGCAACCTTGAAAGCAAATATTGAGATGAATTT
GCTGGGCACGAAACATGTAATTGATCTTTGCAAGCGAATGCCAAAATTGCAGCTTTTAAT
GCACTTATCGACTGCATTTTGCACGTCAGACGAGAAAGGTGTACTTTATGAGCGAGTTTA
CGATTGGAAGGATGATCCAATAGAACTAATGAGATGTGCTCAATGGATGGATGAGAAAAC
AATGCAAAGTTTTCAGCCAAAAATTTTAGATTGTCATCCAAATACATATGTTTATACCAA
GAGGCTTGCTGAATTACTCATTCGTGCAGAATGCAGTACAATTCCAGTTTGTATTGTTCG
TCCTTCAATAGGCAATATCTCCTGCTTGGCAAGCTCCTACACGCGGATGGGTAAGAAAAA
ATTTTCCTGTGGGTATAATGGTGGCTGGAGCAAAGGGTGTTCTTCGTTCAATGCTTTGCA
ATGGTGATTATAAAGGAGAGTGCATTCCTGTTGATTTTGCGATAAACGGCATTATTGGAA
TTGCCATGAATGTTGCGACAAAAATGCATGAAAACTCAATTGAAATCCCAGTATTTAATG
TCACATGCCATCCTGAAAGTAAACAACCTTGGGGTTTTATATTAGAAGAAGGTCGTAAAA
TGGTGCAAAAATATCCTTTCGAATTTGGCCTTTGGGTACCGGGCGGTGGCATCACAACAA
ATAAATTTCTTCATCAACTTAACGTTGCACTCTTTCACTGGGGTCCTGCTTACATCATCG
ACTTTCTTCTGCTCTGTTTCGGACAGAAACGTTTCATGCTCCGTGTTCAGCAGAAAATCT
CACAAGGGCTTGATGTACTCACTTTTTTTACAATGCGCGAATGGCAATTTGACTCGACAC
AATTCCAACGTGTTTTCAATGAATTGGACGTAGAAGATAAGGAGATTTTTTACATGGACA
CCAGGATAATTAAAGACGAAATGCAGTTGGATTATTTAAAAGACACATTACTAGGAGGTC
GTCAATATTGTATGAAAGAGCCTTTATCAACTTTACCAAAGGCAAGAATTCAGCTTAAAA
TGTAAGTAATGAATTGTCATTATCACAAGAGTTAATGCATAATTTCACTTCTTTTGTTTT
TAAAAGAATGCTCATGGTCGATCGATTTATTAAGTTGCTGTTGTTGTATTACATAATCAA
GCTCTTTTTGGGATTGACCGGTCTTGATAGCATTGTTTCTGCATTTATCGACGATCTCAT
GTTGAAAAGCTCATTTAATGCTTCGTTTAATTAA
>g5966.t4 Gene=g5966 Length=273
MAKLTKIQQFYKNKTIFITGASGFMGKCLLEKLLYSCSDVKRIMILMRSKRGKSAQQRVQ
EFTTLAMFQRIKDEKPEVLEKIIAVFGDITQENLGLSEEHLKMVLDESELVFHMAASLKL
EATLKANIEMNLLGTKHVIDLCKRMPKLQLLMHLSTAFCTSDEKGVLYERVYDWKDDPIE
LMRCAQWMDEKTMQSFQPKILDCHPNTYVYTKRLAELLIRAECSTIPVCIVRPSIGNISC
LASSYTRMGKKKFSCGYNGGWSKGCSSFNALQW
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g5966.t4 | CDD | cd05236 | FAR-N_SDR_e | 14 | 235 | 0 |
| 5 | g5966.t4 | Gene3D | G3DSA:3.40.50.720 | - | 2 | 243 | 0 |
| 2 | g5966.t4 | PANTHER | PTHR11011 | MALE STERILITY PROTEIN 2-RELATED | 3 | 235 | 0 |
| 3 | g5966.t4 | PANTHER | PTHR11011:SF12 | FATTY ACYL-COA REDUCTASE | 3 | 235 | 0 |
| 1 | g5966.t4 | Pfam | PF07993 | Male sterility protein | 18 | 235 | 0 |
| 4 | g5966.t4 | SUPERFAMILY | SSF51735 | NAD(P)-binding Rossmann-fold domains | 6 | 235 | 0 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5966/g5966.t4; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5966.t4.fa.iupred3.txt does not exist
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. There were no conditions that were differentially expressed