General information for g17642.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 g17642 is located on HiC_scaffold_25: 2489..5872 (+ 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 |
|---|---|---|---|---|---|---|
| HiC_scaffold_25 | g17642 | g17642.t1 | isoform | g17642.t1 | 2489 | 5872 |
| HiC_scaffold_25 | g17642 | g17642.t1 | exon | g17642.t1.exon1 | 2489 | 2941 |
| HiC_scaffold_25 | g17642 | g17642.t1 | cds | g17642.t1.CDS1 | 2489 | 2941 |
| HiC_scaffold_25 | g17642 | g17642.t1 | exon | g17642.t1.exon2 | 2995 | 3144 |
| HiC_scaffold_25 | g17642 | g17642.t1 | cds | g17642.t1.CDS2 | 2995 | 3144 |
| HiC_scaffold_25 | g17642 | g17642.t1 | exon | g17642.t1.exon3 | 3216 | 3336 |
| HiC_scaffold_25 | g17642 | g17642.t1 | cds | g17642.t1.CDS3 | 3216 | 3336 |
| HiC_scaffold_25 | g17642 | g17642.t1 | exon | g17642.t1.exon4 | 4644 | 4693 |
| HiC_scaffold_25 | g17642 | g17642.t1 | cds | g17642.t1.CDS4 | 4644 | 4693 |
| HiC_scaffold_25 | g17642 | g17642.t1 | exon | g17642.t1.exon5 | 4746 | 4841 |
| HiC_scaffold_25 | g17642 | g17642.t1 | cds | g17642.t1.CDS5 | 4746 | 4841 |
| HiC_scaffold_25 | g17642 | g17642.t1 | exon | g17642.t1.exon6 | 4897 | 5050 |
| HiC_scaffold_25 | g17642 | g17642.t1 | cds | g17642.t1.CDS6 | 4897 | 5050 |
| HiC_scaffold_25 | g17642 | g17642.t1 | exon | g17642.t1.exon7 | 5224 | 5356 |
| HiC_scaffold_25 | g17642 | g17642.t1 | cds | g17642.t1.CDS7 | 5224 | 5356 |
| HiC_scaffold_25 | g17642 | g17642.t1 | exon | g17642.t1.exon8 | 5411 | 5668 |
| HiC_scaffold_25 | g17642 | g17642.t1 | cds | g17642.t1.CDS8 | 5411 | 5668 |
| HiC_scaffold_25 | g17642 | g17642.t1 | exon | g17642.t1.exon9 | 5722 | 5872 |
| HiC_scaffold_25 | g17642 | g17642.t1 | cds | g17642.t1.CDS9 | 5722 | 5872 |
| HiC_scaffold_25 | g17642 | g17642.t1 | TSS | g17642.t1 | NA | NA |
| HiC_scaffold_25 | g17642 | g17642.t1 | TTS | g17642.t1 | NA | NA |
Sequences
>g17642.t1 Gene=g17642 Length=1566
ATGGAAAATTCAAGCAAACTTTCGATCCCAGATTTTTACAATGGCAAAAGTGTTTTACTC
ACAGGAGGTTTTGGATTTTTAGGAAAAGTGATTATTGAAAAACTTCTTCGATCTTGTCCT
GAAATTGAAAATATTTTTTTACTTGCGAGATCAAAGAAAGGCAAAAATGTTCAAGAGAGA
CTTGATGAGATCATAAATACACCACCATTTGCTAATTTGAAAGAAAAGTCTCCAGAAGTT
TTTAAAAAAATTGTCTTGATTGAAGGCGATGTTGCTGAAGAAAATTTGGGAATTTCTGAA
ACTGATCAAAAGTTGATTTGTGACAAAGTTTCAATTTTTATTCACAATGCTGCGACGATA
AATTTTAATGAGCCTCTAAAAACTGCAGTCGATACAAATTTAAGATCAGTTAGAGAAATG
ATAAACTTGGCAAAAAAAGCAAAAAACTTGGATGCATTAGTTCATGTATCGTCAGCTTTT
ACAAATTGGTTTGAATCAGATAACGATAAAATTTTAGTTGAAGAAAAAATCTATCCTAAT
CCATACAATCCAGATGATATAATTAAAATTACACAATTAATGCCGGATGATGTTTTGAAT
AAGATCACACCATCATTATTAGGAAAACATACAAACACTTATACTTTTACGAAAAATTTA
GCAGAGCATTTAATTGTAAATGAAGGAAAAGATATGCCGATTGCCATTATTAGGCCATCA
ATGGTTATAGGAAGTGCAAAAGAACCAATGCCAGGATGGCTTGATAGTTGGGTGGGTCCA
ACAACTTATGCATATTTAATTGCTAGAGGACTTTTAAGATCATGGCATGTTCATAAAAAT
AATGTTGGTGAAGTTATTCCTGTTGACATGACTGTAAATTTAATTATTGCATCAGCATGG
AAAGTTGGAATTGAGAAAAATCTTAAAGAACCACAGATTTATCACAGTGTGACGGGCGCA
AACCCAATAACATGGGAAAAGATGTTTAAACAATATTTAGCAAATGCTAAAAAATATCCA
CTCGATGATGTGTTTTGGTATCCAAATTATAGAATGAGAGAAACAAACTTCGGTGCAAAA
TTAGATGCATTTTTTACTCAAAGAATTCCTGCATACCTTATTGATTTTGCCTCAGTTATT
ATGGGAAAGAAACCAAAGATGATTCGCATGCAAGATAAAATCGAATACGGTTACAGTTTT
ACAAGGTTTTCAGCAACAAATCCAATAAGATTTGAATGCAAAAATTATGAAAAAATAATC
AACAAAATGAACTCAAATGATGTGAAAGAATTTGATTTTGATGTGAGAAAAATCAATTGG
AATAAATTCATTGAAGATCAATTTCTTGGTGCTAGAAAATATTTATACGGTTCAAAGTCA
ACTGATTTTGTTACAGGAAGAAGAAAAATTGCAAAATTAAGAATTGCAAATTATGTTCTT
GTTGGTTCAATATTGACAAGTTCTTTATATTTACTAAATAGAGGAGTAAAATTCATATGG
AAAAATGATAATTCAAAGAAAGTTGTAAATAGTAATGAAACAATTAAAAATGAATCTTTA
TTATAA
>g17642.t1 Gene=g17642 Length=521
MENSSKLSIPDFYNGKSVLLTGGFGFLGKVIIEKLLRSCPEIENIFLLARSKKGKNVQER
LDEIINTPPFANLKEKSPEVFKKIVLIEGDVAEENLGISETDQKLICDKVSIFIHNAATI
NFNEPLKTAVDTNLRSVREMINLAKKAKNLDALVHVSSAFTNWFESDNDKILVEEKIYPN
PYNPDDIIKITQLMPDDVLNKITPSLLGKHTNTYTFTKNLAEHLIVNEGKDMPIAIIRPS
MVIGSAKEPMPGWLDSWVGPTTYAYLIARGLLRSWHVHKNNVGEVIPVDMTVNLIIASAW
KVGIEKNLKEPQIYHSVTGANPITWEKMFKQYLANAKKYPLDDVFWYPNYRMRETNFGAK
LDAFFTQRIPAYLIDFASVIMGKKPKMIRMQDKIEYGYSFTRFSATNPIRFECKNYEKII
NKMNSNDVKEFDFDVRKINWNKFIEDQFLGARKYLYGSKSTDFVTGRRKIAKLRIANYVL
VGSILTSSLYLLNRGVKFIWKNDNSKKVVNSNETIKNESLL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g17642.t1 | CDD | cd05236 | FAR-N_SDR_e | 16 | 340 | 2.4458E-126 |
| 11 | g17642.t1 | CDD | cd09071 | FAR_C | 365 | 455 | 4.25431E-26 |
| 6 | g17642.t1 | Gene3D | G3DSA:3.40.50.720 | - | 2 | 363 | 5.0E-73 |
| 3 | g17642.t1 | PANTHER | PTHR11011:SF60 | FATTY ACYL-COA REDUCTASE 2 | 8 | 492 | 1.8E-148 |
| 4 | g17642.t1 | PANTHER | PTHR11011 | MALE STERILITY PROTEIN 2-RELATED | 8 | 492 | 1.8E-148 |
| 1 | g17642.t1 | Pfam | PF07993 | Male sterility protein | 20 | 295 | 3.4E-71 |
| 2 | g17642.t1 | Pfam | PF03015 | Male sterility protein | 367 | 455 | 3.4E-22 |
| 8 | g17642.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 474 | - |
| 9 | g17642.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 475 | 492 | - |
| 7 | g17642.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 493 | 521 | - |
| 5 | g17642.t1 | SUPERFAMILY | SSF51735 | NAD(P)-binding Rossmann-fold domains | 9 | 301 | 3.0E-29 |
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. There were no conditions that were differentially expressed