General information for g5967.t3
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 g5967 is located on chr_2: 13096316..13100270 (- 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 | g5967 | g5967.t3 | TTS | g5967.t3 | 13096171 | 13096171 |
| chr_2 | g5967 | g5967.t3 | isoform | g5967.t3 | 13096316 | 13100270 |
| chr_2 | g5967 | g5967.t3 | exon | g5967.t3.exon1 | 13096316 | 13096436 |
| chr_2 | g5967 | g5967.t3 | exon | g5967.t3.exon2 | 13096499 | 13096542 |
| chr_2 | g5967 | g5967.t3 | exon | g5967.t3.exon3 | 13096605 | 13097058 |
| chr_2 | g5967 | g5967.t3 | exon | g5967.t3.exon4 | 13097116 | 13097271 |
| chr_2 | g5967 | g5967.t3 | cds | g5967.t3.CDS1 | 13097213 | 13097271 |
| chr_2 | g5967 | g5967.t3 | exon | g5967.t3.exon5 | 13097375 | 13097510 |
| chr_2 | g5967 | g5967.t3 | cds | g5967.t3.CDS2 | 13097375 | 13097510 |
| chr_2 | g5967 | g5967.t3 | exon | g5967.t3.exon6 | 13097595 | 13098017 |
| chr_2 | g5967 | g5967.t3 | cds | g5967.t3.CDS3 | 13097595 | 13098017 |
| chr_2 | g5967 | g5967.t3 | exon | g5967.t3.exon7 | 13098088 | 13098218 |
| chr_2 | g5967 | g5967.t3 | cds | g5967.t3.CDS4 | 13098088 | 13098218 |
| chr_2 | g5967 | g5967.t3 | exon | g5967.t3.exon8 | 13098279 | 13098365 |
| chr_2 | g5967 | g5967.t3 | cds | g5967.t3.CDS5 | 13098279 | 13098342 |
| chr_2 | g5967 | g5967.t3 | exon | g5967.t3.exon9 | 13100107 | 13100270 |
| chr_2 | g5967 | g5967.t3 | TSS | g5967.t3 | 13100297 | 13100297 |
Sequences
>g5967.t3 Gene=g5967 Length=1716
AGACGCACAAATTCATTCGCTCAAGTAAGTCCGTGAGTGTCGAAAAAAAAAAGTTGCATT
AGGCAATTTTAAAGAAAAAGAAGTTAAATTGTACACTTTAACTTTGAAGCATTTTTTTGG
AGTTTTTTAATTTTTTTGATTGGATTTATTGCGCAAACAAAATTAAGAAAAACATCAACA
TATCAAAATGGCTGAAATTGGAATTAGGGAATTCTTTAAAGGAAAATCTGTTTTTATAAC
TGGAGGTTCAGGATTCATGGGAAAAGTTCTCATTGAAAAGTTGCTCTACTCATGTTCTGA
TATAAATGAAATTTTTCTTCTTATGAGACCAAAACGAGGCAAGAGCGGCGAACAACGCGT
TCAAGAGTTTGCTCAAATTCCAGTCTTTCATCGCATTAAAGACAGACTTGATCTGCTTAA
TAAAATTGTACCTGTATATGGAGACATAACAAATGATCGTCTTGGCCTTAGTGATGAACA
GTACAATCGTGTTATCACTACTACTAATGTTGTCTTTCATTTGGCCGCAAGCTTAAAATT
AGAAGCTACATTAAAGCCAAATGTTGAAATGAATTTAACAGGCACCAAGAATGTTCTTGA
TATGTGCAAAGAAATGCCAAAACTCTTAGCTGTGCTTCATCTTTCAACAGCATTTTGTAA
TTGTGATCAGGATATATTGTATGAAGAGATTTATGATTGGCCACAAAAGCCACTCGATCT
CATCAAATGCTCAACATGGATGAGTGAAGAAGCAATGCACGAAATGGGAAAATCAATGAT
GTCCCCACATCCAAATACTTATACTTTTACTAAAAGATTGGCAGAGATTTTGGTACGTGA
TGAATATGATCAAGGAAAACTAAATGTCTGCGTTGTTCGTCCATCAATTGTCACACCTGC
ATGGAAAGAGCCTTTACCAGGCTGGGTTGATTCTCTTAACGTTCATAAGATTTTTAACGC
TCTTAGGTTGCTGGTGGTAAAGGAGTTTTGCGCTCAATGATATGTGAAGCAAATTACACA
GCTGAAGTTATACCTGTTGATCAAGCAATTAATGGAATTATTTCAATTGCTTATATTATG
GGAACAATGAAAGAGAGACCATCAAAAATTCCAGTTTATAATATAACATGCAGTGAAAAA
AAGCGTGTCACGTGGGGAACAGTTTTAAATGATGGAAAACGTATAAATTATGAATATCCC
TTTGACGCTGGATTGTGGTACCCTAATGGAGATGTTACCATGAATTATGTGAAACATTAT
CTTACACTCTTCTTTTGTCAATGGATTCCTGCACTTCTTATTGATTTTCTTATGCTCATT
TTCTTCCAACCAAGATTTATGATTCGTGTGCAGAAAAAGATTTTTATTGGTCTTGGAGTT
TTACAATTTTTCACAACACGTAACTGGGATTTTAGATCAGAGAACTTTAAAGCAATTCAT
CATAAGTTGTCGCCAGAAGAAAAAATTATTTTTAATACGAACACTGAAGAAGTTGAACAA
TTTGACTATTTGAAAAGCATCATATTAGGTGGTCGTCAATATTGTTTAAAGGAACCATTA
GAAAATTTACCAAGAGCAAGATTTCACCAAAGAATTCAATATGTTGTTGATATTCTTTTT
AAATGTTTCCTAATCTACTATATTGGCAAGTGGCTTCTTCGAATTACTGGACTTTTAGAA
ATACTCAATGGTCTTTTAAGTACCAATGCAAACTAA
>g5967.t3 Gene=g5967 Length=270
MAEIGIREFFKGKSVFITGGSGFMGKVLIEKLLYSCSDINEIFLLMRPKRGKSGEQRVQE
FAQIPVFHRIKDRLDLLNKIVPVYGDITNDRLGLSDEQYNRVITTTNVVFHLAASLKLEA
TLKPNVEMNLTGTKNVLDMCKEMPKLLAVLHLSTAFCNCDQDILYEEIYDWPQKPLDLIK
CSTWMSEEAMHEMGKSMMSPHPNTYTFTKRLAEILVRDEYDQGKLNVCVVRPSIVTPAWK
EPLPGWVDSLNVHKIFNALRLLVVKEFCAQ
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g5967.t3 | CDD | cd05236 | FAR-N_SDR_e | 13 | 269 | 0 |
| 5 | g5967.t3 | Gene3D | G3DSA:3.40.50.720 | - | 7 | 265 | 0 |
| 2 | g5967.t3 | PANTHER | PTHR11011 | MALE STERILITY PROTEIN 2-RELATED | 6 | 251 | 0 |
| 3 | g5967.t3 | PANTHER | PTHR11011:SF12 | FATTY ACYL-COA REDUCTASE | 6 | 251 | 0 |
| 1 | g5967.t3 | Pfam | PF07993 | Male sterility protein | 17 | 266 | 0 |
| 4 | g5967.t3 | SUPERFAMILY | SSF51735 | NAD(P)-binding Rossmann-fold domains | 5 | 257 | 0 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5967/g5967.t3; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5967.t3.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