General information for g3715.t9
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Fatty acyl-CoA reductase wat.
Parent gene
- The parent gene g3715 is located on chr_3: 27608867..27612319 (- 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_3 | g3715 | g3715.t9 | TTS | g3715.t9 | 27605604 | 27605604 |
| chr_3 | g3715 | g3715.t9 | isoform | g3715.t9 | 27605725 | 27612319 |
| chr_3 | g3715 | g3715.t9 | exon | g3715.t9.exon1 | 27605725 | 27605979 |
| chr_3 | g3715 | g3715.t9 | cds | g3715.t9.CDS1 | 27605725 | 27605979 |
| chr_3 | g3715 | g3715.t9 | exon | g3715.t9.exon2 | 27606064 | 27606157 |
| chr_3 | g3715 | g3715.t9 | cds | g3715.t9.CDS2 | 27606064 | 27606157 |
| chr_3 | g3715 | g3715.t9 | exon | g3715.t9.exon3 | 27606320 | 27606689 |
| chr_3 | g3715 | g3715.t9 | cds | g3715.t9.CDS3 | 27606320 | 27606689 |
| chr_3 | g3715 | g3715.t9 | exon | g3715.t9.exon4 | 27606754 | 27606929 |
| chr_3 | g3715 | g3715.t9 | cds | g3715.t9.CDS4 | 27606754 | 27606929 |
| chr_3 | g3715 | g3715.t9 | exon | g3715.t9.exon5 | 27606997 | 27607142 |
| chr_3 | g3715 | g3715.t9 | cds | g3715.t9.CDS5 | 27606997 | 27607142 |
| chr_3 | g3715 | g3715.t9 | exon | g3715.t9.exon6 | 27607757 | 27608005 |
| chr_3 | g3715 | g3715.t9 | cds | g3715.t9.CDS6 | 27607757 | 27608005 |
| chr_3 | g3715 | g3715.t9 | exon | g3715.t9.exon7 | 27608109 | 27608221 |
| chr_3 | g3715 | g3715.t9 | cds | g3715.t9.CDS7 | 27608109 | 27608221 |
| chr_3 | g3715 | g3715.t9 | exon | g3715.t9.exon8 | 27609453 | 27609527 |
| chr_3 | g3715 | g3715.t9 | cds | g3715.t9.CDS8 | 27609453 | 27609527 |
| chr_3 | g3715 | g3715.t9 | exon | g3715.t9.exon9 | 27609602 | 27609679 |
| chr_3 | g3715 | g3715.t9 | cds | g3715.t9.CDS9 | 27609602 | 27609647 |
| chr_3 | g3715 | g3715.t9 | exon | g3715.t9.exon10 | 27612210 | 27612319 |
| chr_3 | g3715 | g3715.t9 | TSS | g3715.t9 | 27612316 | 27612316 |
Sequences
>g3715.t9 Gene=g3715 Length=1666
TTTAGTTAGATTTTGGTCGTTGTGTCAATCATACGTGCTGACGAGTTAAAAAATAAATAA
ATATAGCGCTTGAGTTGAATATAAAGAATTGCTTAAAGAAGAAAAAAAGAACTTAAATTT
ATAACATAAATAAATAAAGAAAATGGCTCCCTTGCAAGAAACAATCGAAGAATACAATGA
ATTGCAGCAGAGCTCACCGATCCAGCAATTCTACAAGAATAAAAACATCTTCATTACCGG
AGCGACAGGTTTTCTCGGAAAAGTTTTAATTGAGAAACTCTTAAGAGCCTGTGACGTTGA
GAGGATTTTTATATTGATTCGAAGTAAGAAAAATGACGATATTAACACACGTATGGAAAA
AATATTTGAAGATCAATTATTTGATCAAGTGAGAAAAAACAATCCAACTTATCGACAAAA
AATTTATCCAATCAATGGCGACTGCATTTTGCCTGGCTTGGGCATCAGTCTAAGTGACCG
TGCACTGCTCATCAAACACTGCAATATTGTCTTTCATGGTGCAGCTACAGTTAGATTTGA
TGAGAAACTGAAACTTGCTCTTGCAATCAATGTTTGCGGTACAAGAGAAATTATGAATTT
AGCTAAAGAAATGGAAAATCTTCAGGCATTTCTTCATATTTCAACTGCATATGCAAATTG
TCCACATCCTGAAATTGAAGAAAAATTTTATTCAACACCAATCAGCGGAGAGAATGGTAC
ATATTTGGCTGAAATGTTAGATGAAGAAACATTAGAAAAAATGACACCAGCACTCTTGAG
AGACTGGCCCAATACATATACATATACAAAGTCATTGGCAGAAGATTATGTTAGAGCACA
TTCTAAAAATTTACCAGTTGCTGTATTTCGTCCTGCAATTGTAATACCAACATTTAGAGA
ACCACTTAGAGGTTGGATCGATAACATGTATGGCCCAACTGGAATTGTTATTGGAGTTGC
TGCCGGACTTTTGAGAGTTTTACACATAAACAAAGAGAACAGAGCTGAGCTTGTACCCGT
TGATATGTCTGTAAATTCGCTCATTGCCTGTGCTTATGATGTCGGTATAAATAATCATTA
TGATGAGCCACCAATCTACAATTATGTTACAAGCAAAAAAAATTCTATTTCATGGCAAGA
TTATTGCGATTATAGCATTTTAAATGGAGTAACCGCACCATTATCGAAAATGGCTTGGTA
CTTTACATTTACAATGGTCTCATCTAAAAATCTTGCTATATTATTGACCTTCCTCTATCA
TACATTACCGGCTGCAATTATTGATGGTGTTCTTGTATTGTGTGGAAAAACTCCAAAATT
ACTCGACACTTACCGAAAAATTCACAAACTCTGCAATGTTTTATCTTATTTCACAAATCG
TGTATGGAGCTTCAAAAACCACAATGTAGAAAACCTCTGGCGTAAGCTTGACATCAAGGA
CAAAGAATTGTTCTTCTTTGACATGAATGATATCGAATGGCCAATGTTTTTTGTTGAAAG
TATTTATGGCATTAGAACATATCTGATGAAGGAAGATCCAAAGACAATACCTGAGGCTTG
CAAAAGGCTTAAAAAGATGAGAATTATTCACTATGTTACTGTTTATGTTATTAGATTTGG
AGTTTTGTATTTTCTATATAAAATTCTTAAATCAATTTTATTTTAA
>g3715.t9 Gene=g3715 Length=507
MAPLQETIEEYNELQQSSPIQQFYKNKNIFITGATGFLGKVLIEKLLRACDVERIFILIR
SKKNDDINTRMEKIFEDQLFDQVRKNNPTYRQKIYPINGDCILPGLGISLSDRALLIKHC
NIVFHGAATVRFDEKLKLALAINVCGTREIMNLAKEMENLQAFLHISTAYANCPHPEIEE
KFYSTPISGENGTYLAEMLDEETLEKMTPALLRDWPNTYTYTKSLAEDYVRAHSKNLPVA
VFRPAIVIPTFREPLRGWIDNMYGPTGIVIGVAAGLLRVLHINKENRAELVPVDMSVNSL
IACAYDVGINNHYDEPPIYNYVTSKKNSISWQDYCDYSILNGVTAPLSKMAWYFTFTMVS
SKNLAILLTFLYHTLPAAIIDGVLVLCGKTPKLLDTYRKIHKLCNVLSYFTNRVWSFKNH
NVENLWRKLDIKDKELFFFDMNDIEWPMFFVESIYGIRTYLMKEDPKTIPEACKRLKKMR
IIHYVTVYVIRFGVLYFLYKILKSILF
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 14 | g3715.t9 | CDD | cd05236 | FAR-N_SDR_e | 27 | 337 | 7.75798E-117 |
| 15 | g3715.t9 | CDD | cd09071 | FAR_C | 371 | 462 | 8.03692E-35 |
| 8 | g3715.t9 | Gene3D | G3DSA:3.40.50.720 | - | 3 | 359 | 4.5E-77 |
| 3 | g3715.t9 | PANTHER | PTHR11011:SF60 | FATTY ACYL-COA REDUCTASE 2 | 17 | 500 | 1.3E-180 |
| 4 | g3715.t9 | PANTHER | PTHR11011 | MALE STERILITY PROTEIN 2-RELATED | 17 | 500 | 1.3E-180 |
| 1 | g3715.t9 | Pfam | PF07993 | Male sterility protein | 31 | 299 | 2.3E-76 |
| 2 | g3715.t9 | Pfam | PF03015 | Male sterility protein | 372 | 464 | 8.3E-30 |
| 11 | g3715.t9 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 363 | - |
| 13 | g3715.t9 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 364 | 388 | - |
| 9 | g3715.t9 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 389 | 480 | - |
| 12 | g3715.t9 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 481 | 499 | - |
| 10 | g3715.t9 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 500 | 507 | - |
| 7 | g3715.t9 | SUPERFAMILY | SSF51735 | NAD(P)-binding Rossmann-fold domains | 20 | 309 | 8.25E-35 |
| 6 | g3715.t9 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 366 | 388 | - |
| 5 | g3715.t9 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 481 | 499 | - |
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 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.
