General information for g5967.t1
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.t1 | TTS | g5967.t1 | 13096171 | 13096171 |
| chr_2 | g5967 | g5967.t1 | isoform | g5967.t1 | 13096316 | 13098342 |
| chr_2 | g5967 | g5967.t1 | exon | g5967.t1.exon1 | 13096316 | 13096436 |
| chr_2 | g5967 | g5967.t1 | cds | g5967.t1.CDS1 | 13096316 | 13096436 |
| chr_2 | g5967 | g5967.t1 | exon | g5967.t1.exon2 | 13096499 | 13096542 |
| chr_2 | g5967 | g5967.t1 | cds | g5967.t1.CDS2 | 13096499 | 13096542 |
| chr_2 | g5967 | g5967.t1 | exon | g5967.t1.exon3 | 13096605 | 13097058 |
| chr_2 | g5967 | g5967.t1 | cds | g5967.t1.CDS3 | 13096605 | 13097058 |
| chr_2 | g5967 | g5967.t1 | exon | g5967.t1.exon4 | 13097116 | 13097246 |
| chr_2 | g5967 | g5967.t1 | cds | g5967.t1.CDS4 | 13097116 | 13097246 |
| chr_2 | g5967 | g5967.t1 | exon | g5967.t1.exon5 | 13097302 | 13097318 |
| chr_2 | g5967 | g5967.t1 | cds | g5967.t1.CDS5 | 13097302 | 13097318 |
| chr_2 | g5967 | g5967.t1 | exon | g5967.t1.exon6 | 13097375 | 13097510 |
| chr_2 | g5967 | g5967.t1 | cds | g5967.t1.CDS6 | 13097375 | 13097510 |
| chr_2 | g5967 | g5967.t1 | exon | g5967.t1.exon7 | 13097595 | 13098017 |
| chr_2 | g5967 | g5967.t1 | cds | g5967.t1.CDS7 | 13097595 | 13098017 |
| chr_2 | g5967 | g5967.t1 | exon | g5967.t1.exon8 | 13098088 | 13098218 |
| chr_2 | g5967 | g5967.t1 | cds | g5967.t1.CDS8 | 13098088 | 13098218 |
| chr_2 | g5967 | g5967.t1 | exon | g5967.t1.exon9 | 13098279 | 13098342 |
| chr_2 | g5967 | g5967.t1 | cds | g5967.t1.CDS9 | 13098279 | 13098342 |
| chr_2 | g5967 | g5967.t1 | TSS | g5967.t1 | NA | NA |
Sequences
>g5967.t1 Gene=g5967 Length=1521
ATGGCTGAAATTGGAATTAGGGAATTCTTTAAAGGAAAATCTGTTTTTATAACTGGAGGT
TCAGGATTCATGGGAAAAGTTCTCATTGAAAAGTTGCTCTACTCATGTTCTGATATAAAT
GAAATTTTTCTTCTTATGAGACCAAAACGAGGCAAGAGCGGCGAACAACGCGTTCAAGAG
TTTGCTCAAATTCCAGTCTTTCATCGCATTAAAGACAGACTTGATCTGCTTAATAAAATT
GTACCTGTATATGGAGACATAACAAATGATCGTCTTGGCCTTAGTGATGAACAGTACAAT
CGTGTTATCACTACTACTAATGTTGTCTTTCATTTGGCCGCAAGCTTAAAATTAGAAGCT
ACATTAAAGCCAAATGTTGAAATGAATTTAACAGGCACCAAGAATGTTCTTGATATGTGC
AAAGAAATGCCAAAACTCTTAGCTGTGCTTCATCTTTCAACAGCATTTTGTAATTGTGAT
CAGGATATATTGTATGAAGAGATTTATGATTGGCCACAAAAGCCACTCGATCTCATCAAA
TGCTCAACATGGATGAGTGAAGAAGCAATGCACGAAATGGGAAAATCAATGATGTCCCCA
CATCCAAATACTTATACTTTTACTAAAAGATTGGCAGAGATTTTGGTACGTGATGAATAT
GATCAAGGAAAACTAAATGTCTGCGTTGTTCGTCCATCAATTGTCACACCTGCATGGAAA
GAGCCTTTACCAGGCTGGGTTGATTCTCTTAACGGTCCGATTGGCATTATGGTTGCTGGT
GGTAAAGGAGTTTTGCGCTCAATGATATGTGAAGCAAATTACACAGCTGAAGTTATACCT
GTTGATCAAGCAATTAATGGAATTATTTCAATTGCTTATATTATGGGAACAATGAAAGAG
AGACCATCAAAAATTCCAGTTTATAATATAACATGCAGTGAAAAAAAGCGTGTCACGTGG
GGAACAGTTTTAAATGATGGAAAACGTATAAATTATGAATATCCCTTTGACGCTGGATTG
TGGTACCCTAATGGAGATGTTACCATGAATTATGTGAAACATTATCTTACACTCTTCTTT
TGTCAATGGATTCCTGCACTTCTTATTGATTTTCTTATGCTCATTTTCTTCCAACCAAGA
TTTATGATTCGTGTGCAGAAAAAGATTTTTATTGGTCTTGGAGTTTTACAATTTTTCACA
ACACGTAACTGGGATTTTAGATCAGAGAACTTTAAAGCAATTCATCATAAGTTGTCGCCA
GAAGAAAAAATTATTTTTAATACGAACACTGAAGAAGTTGAACAATTTGACTATTTGAAA
AGCATCATATTAGGTGGTCGTCAATATTGTTTAAAGGAACCATTAGAAAATTTACCAAGA
GCAAGATTTCACCAAAGAATTCAATATGTTGTTGATATTCTTTTTAAATGTTTCCTAATC
TACTATATTGGCAAGTGGCTTCTTCGAATTACTGGACTTTTAGAAATACTCAATGGTCTT
TTAAGTACCAATGCAAACTAA
>g5967.t1 Gene=g5967 Length=506
MAEIGIREFFKGKSVFITGGSGFMGKVLIEKLLYSCSDINEIFLLMRPKRGKSGEQRVQE
FAQIPVFHRIKDRLDLLNKIVPVYGDITNDRLGLSDEQYNRVITTTNVVFHLAASLKLEA
TLKPNVEMNLTGTKNVLDMCKEMPKLLAVLHLSTAFCNCDQDILYEEIYDWPQKPLDLIK
CSTWMSEEAMHEMGKSMMSPHPNTYTFTKRLAEILVRDEYDQGKLNVCVVRPSIVTPAWK
EPLPGWVDSLNGPIGIMVAGGKGVLRSMICEANYTAEVIPVDQAINGIISIAYIMGTMKE
RPSKIPVYNITCSEKKRVTWGTVLNDGKRINYEYPFDAGLWYPNGDVTMNYVKHYLTLFF
CQWIPALLIDFLMLIFFQPRFMIRVQKKIFIGLGVLQFFTTRNWDFRSENFKAIHHKLSP
EEKIIFNTNTEEVEQFDYLKSIILGGRQYCLKEPLENLPRARFHQRIQYVVDILFKCFLI
YYIGKWLLRITGLLEILNGLLSTNAN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 13 | g5967.t1 | CDD | cd05236 | FAR-N_SDR_e | 13 | 323 | 4.63414E-115 |
| 14 | g5967.t1 | CDD | cd09071 | FAR_C | 360 | 451 | 3.55117E-27 |
| 7 | g5967.t1 | Gene3D | G3DSA:3.40.50.720 | - | 7 | 339 | 3.0E-67 |
| 3 | g5967.t1 | PANTHER | PTHR11011 | MALE STERILITY PROTEIN 2-RELATED | 6 | 490 | 1.4E-214 |
| 4 | g5967.t1 | PANTHER | PTHR11011:SF12 | FATTY ACYL-COA REDUCTASE | 6 | 490 | 1.4E-214 |
| 1 | g5967.t1 | Pfam | PF07993 | Male sterility protein | 17 | 287 | 1.1E-69 |
| 2 | g5967.t1 | Pfam | PF03015 | Male sterility protein | 362 | 453 | 1.0E-23 |
| 9 | g5967.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 354 | - |
| 11 | g5967.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 355 | 377 | - |
| 8 | g5967.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 378 | 468 | - |
| 12 | g5967.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 469 | 488 | - |
| 10 | g5967.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 489 | 506 | - |
| 6 | g5967.t1 | SUPERFAMILY | SSF51735 | NAD(P)-binding Rossmann-fold domains | 5 | 282 | 4.45E-28 |
| 5 | g5967.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 355 | 377 | - |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5967/g5967.t1; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5967.t1.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 transcript has been annotated with K13356 (alcohol-forming fatty acyl-CoA reductase)
Pathway
- This transcript belongs to the following pathways
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