General information for g13485.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Fatty acid synthase.
Parent gene
- The parent gene g13485 is located on chr_1: 30404655..30412761 (+ 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_1 | g13485 | g13485.t1 | isoform | g13485.t1 | 30403117 | 30404655 |
| chr_1 | g13485 | g13485.t1 | exon | g13485.t1.exon1 | 30403117 | 30404655 |
| chr_1 | g13485 | g13485.t1 | cds | g13485.t1.CDS1 | 30403117 | 30404655 |
| chr_1 | g13485 | g13485.t1 | TSS | g13485.t1 | NA | NA |
| chr_1 | g13485 | g13485.t1 | TTS | g13485.t1 | NA | NA |
Sequences
>g13485.t1 Gene=g13485 Length=1539
ATGTTTGAAGAATCTTTGGCACCTAAAGCAGCAGCAACAAAAAATCTTGATCAAATTTCA
TGCAAATTATGTCCAAATTTGAAGCATTTTGTTGTGTTTTCAAGTTTCTCTTGTGGTCGT
GGCAATGCAGGTCAAAGTAATTATGGCTTAGGAAATTCAATTATGGAAAGAATTATTGAA
GAAAGACGAGAACTTGGTTTGCCAGCAAAAGCAATTCAATGGGCAGCAGTCGGTGATGTT
GGTTTGCTTGCAGATTTTCAATTGAATAATTTAGATAAAGATTTTAAAGGAACCTTACCA
CAAGCGATTTCTTCATGTCTCGAAGTGCTTGATGTTTTAATGACATCAGATGATGCAATA
GTTTCAAGTATGGTTGTTGCTGATAAGACAATGAATGATGTAAAAAAAGGCAACATTATA
GATATGATCTTAAAAATCATGGGAATTCGTGATAGAAAATCAATTTCAATGGATTCGACA
CTTACACAACTTGGCATCGATTCTTTGATGGGCGTAGAAATTCAGCAGATTTTAGAAAGA
GATTTTGATATTGCATTGACATCACAAGAGTTGCGATCACTCACATTAAGTCAATTAGAA
AAGCGTGCAATTTCAAAAGGTGAAAACAGTGATAACGTTCAAGAAAATCGCACAGCAACT
GAGGCTCAATGGATGAAGTTATTAATAGATGGTGTAATTGATAAAGAAACTAAAGAACTC
TATACAAGTGAAACCATTGTCAAAGCAAATGAAATTGAAATGAATGAAAATACAAAAGTG
TTGATTATTCCTGGTTTTTATGGTGCAGCAGCTGACATTTATAGGATTTTAGCTAAAGAA
ATGGACAAACCAGCTTATATTTTACAATTAATTGAAACTTCAGAATGTGAAAGTATTGAC
AATATTATTGAAATCATTGAACCAAAAATTCTCAATTTATTTAGTGATTGTGACAATTTT
GTTCTAATTGCGCATTCATTTGGATCAATTTTATCATTGAAAATTGCAAACATTCTAGAA
AACAAAGGAATGAAGGGAAATGTAATTCAACTTGATGGTTCACCTCAATTTATAAATAAA
TTTGCACTCAAAATGTCTCCTGATAAAAGTTCTGAGAAAATTAAAGCTGCAATTTCGATG
ATTTTGTTTGATGGCTTTTTACCATATGTTGATCAACTAGTGGCAAAAGCCGCATTTCAA
GAGAATGAAAATTGGGAAGATAAAGTTGAAGCAATGTTGAAAGCTTCAACTGACAAAATT
CCATATCCTTTTGATTTTATTAAAAGAAACATCTTCACAGCACTTGTCAATCGCTTTAAT
ATTGTTCTTAGTCTTAATGAAGAATCTTTTGATAGTTTGAAGTGTACAAAAATCTCATTG
ATTAAAGCAACAAAATCATCAGTTAATGGATTACAGAAAGATTACGGTTTATTAAAGTAT
AGTAACGAACAAGTTAGAATTCAAACATTAGAAGGTGATCATGTGACAATTATTACTAAT
CCAAAGTTAATTAATCTTATCAAGAATATTTTAGTGTAG
>g13485.t1 Gene=g13485 Length=512
MFEESLAPKAAATKNLDQISCKLCPNLKHFVVFSSFSCGRGNAGQSNYGLGNSIMERIIE
ERRELGLPAKAIQWAAVGDVGLLADFQLNNLDKDFKGTLPQAISSCLEVLDVLMTSDDAI
VSSMVVADKTMNDVKKGNIIDMILKIMGIRDRKSISMDSTLTQLGIDSLMGVEIQQILER
DFDIALTSQELRSLTLSQLEKRAISKGENSDNVQENRTATEAQWMKLLIDGVIDKETKEL
YTSETIVKANEIEMNENTKVLIIPGFYGAAADIYRILAKEMDKPAYILQLIETSECESID
NIIEIIEPKILNLFSDCDNFVLIAHSFGSILSLKIANILENKGMKGNVIQLDGSPQFINK
FALKMSPDKSSEKIKAAISMILFDGFLPYVDQLVAKAAFQENENWEDKVEAMLKASTDKI
PYPFDFIKRNIFTALVNRFNIVLSLNEESFDSLKCTKISLIKATKSSVNGLQKDYGLLKY
SNEQVRIQTLEGDHVTIITNPKLINLIKNILV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 13 | g13485.t1 | Coils | Coil | Coil | 395 | 415 | - |
| 9 | g13485.t1 | Gene3D | G3DSA:3.40.50.720 | - | 8 | 126 | 6.9E-51 |
| 10 | g13485.t1 | Gene3D | G3DSA:1.10.1200.10 | - | 130 | 219 | 4.9E-18 |
| 12 | g13485.t1 | Gene3D | G3DSA:3.40.50.1820 | - | 258 | 503 | 3.6E-31 |
| 11 | g13485.t1 | Gene3D | G3DSA:1.10.1470.20 | Fatty acid synthase; domain 2 | 358 | 445 | 3.6E-31 |
| 3 | g13485.t1 | PANTHER | PTHR43775 | FATTY ACID SYNTHASE | 2 | 510 | 2.1E-118 |
| 4 | g13485.t1 | PANTHER | PTHR43775:SF23 | FATTY ACID SYNTHASE 3 | 2 | 510 | 2.1E-118 |
| 2 | g13485.t1 | Pfam | PF08659 | KR domain | 2 | 78 | 2.8E-15 |
| 1 | g13485.t1 | Pfam | PF00550 | Phosphopantetheine attachment site | 139 | 199 | 5.3E-8 |
| 14 | g13485.t1 | ProSiteProfiles | PS50075 | Carrier protein (CP) domain profile. | 130 | 210 | 10.05 |
| 8 | g13485.t1 | SMART | SM00823 | Phosphopantetheine attachment site | 136 | 194 | 7.6E-4 |
| 6 | g13485.t1 | SUPERFAMILY | SSF51735 | NAD(P)-binding Rossmann-fold domains | 2 | 116 | 3.68E-7 |
| 7 | g13485.t1 | SUPERFAMILY | SSF47336 | ACP-like | 139 | 200 | 5.89E-10 |
| 5 | g13485.t1 | SUPERFAMILY | SSF53474 | alpha/beta-Hydrolases | 255 | 510 | 6.58E-16 |
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:0031177 | phosphopantetheine binding | MF |
| GO:0004312 | fatty acid synthase 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.
