General information for g5437.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Fatty acid synthase.
Parent gene
- The parent gene g5437 is located on chr_2: 9568079..9573416 (+ 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 | g5437 | g5437.t2 | TSS | g5437.t2 | 9565372 | 9565372 |
| chr_2 | g5437 | g5437.t2 | isoform | g5437.t2 | 9565534 | 9568079 |
| chr_2 | g5437 | g5437.t2 | exon | g5437.t2.exon1 | 9565534 | 9565973 |
| chr_2 | g5437 | g5437.t2 | cds | g5437.t2.CDS1 | 9565534 | 9565973 |
| chr_2 | g5437 | g5437.t2 | exon | g5437.t2.exon2 | 9566053 | 9566256 |
| chr_2 | g5437 | g5437.t2 | cds | g5437.t2.CDS2 | 9566053 | 9566256 |
| chr_2 | g5437 | g5437.t2 | exon | g5437.t2.exon3 | 9566688 | 9568079 |
| chr_2 | g5437 | g5437.t2 | cds | g5437.t2.CDS3 | 9566688 | 9568077 |
| chr_2 | g5437 | g5437.t2 | TTS | g5437.t2 | 9568109 | 9568109 |
Sequences
>g5437.t2 Gene=g5437 Length=2036
ATGAGCAAAAGTGAACAAATTAATGGCATAGATATGGATGGTGAAGCAGTTGTTGTTTCT
GGAATATCAGGAAGATTTCCAAATGCGGATAATGTTAAAGAATTTGAATATAATTTATAT
AATAAAATTGATATGACAGATGAGGATGAAAGTAGATGGAAACATTTTCATCCTGAAGTG
CCAGCGCGTACAGGAAAAATTCGAAATCTTGAAAAATTTGATGCATCGTTTTTTTCAATT
TTAAATAAGCATGCAAATTGGATGGATCCACAATGTCGTTGTTTATTGGAGCATGCTTAT
GAGGCCATAATTGATGCCGGTATTAGTCCGCAATCATTAGTTGGAAGTCGTACTGGTGTT
TTTATTGGCTGTTGCTTCTCAGATTCTCGTGATGTATTTTTCTATAAAACGCCAGTTAAA
GAGGGTTATGGTGTTTTTGGAAATGCAAATTTTTACTTATCTAATCGTCTATCGTATGCA
CTTGGATTATGTGGACCATCTTTTACTGTCGACACAGCTTGCTCGAGTTCAGCATACGCA
TTAGATTGTGCATACAAATACATCATGAGTGGTGCTTGTGATAGTGCAATTGTCGGTGGA
TCACAGTTGGTACTCAATCTCACATCAACTGTTGAATACTCCAGACTTCGAATTTTGGCG
CCTGATGGAGAGTTTTGTCGACCATTTGATGAAAATGCTACTGGATTCACTCGTGCTGAT
ACCATAAGTGTCATATTTTTACAACGTCAAAAAGATTCAAAGCGTGTTTATGCTCAACTT
ATGCATACAAATTCAAACAATGATGGTTTTAAGAAAGAAGGAAGTTCTTTCCCTTCACGA
GTAATGCAACAAAAACTTATGGAAGATTTCTTTAAACAATCTAAAATTGATCCAAGTTTG
ATTGATTTTGTGGAAGCACATTCAACAGGTACACGTTTGGGTGATCCTGAAGAAGTGGCA
GCAATTGATGAAGTTTTCTGTAAAAATAAACACCGCAAAAAGCCATTACCAATTGGCAGT
GTAAAATCAAACATGGGACATGCTGAAGCATCCAGTGGCGTTGCTTCAATCGCTAAAATT
TTACTTGCTTTCGAGAACAAGAAAATTGCACCCAATATCAATGTTACCAACATGCGTAAA
GACATTCCATCTTTTGCCGAGGGTCGTATTAGAGTTGTTACTGAAGTTGAAGATTTGGCT
GGTCCATATATATCAATGAATAGTTTTGGTTTAGGTGGGGCAAACGCGCATTGTCTTTTC
AAGGGAAATTTAAAAGAAAAAGTTAACCACGGAATCCCTTCAGATGATTTGGGTCGAATG
GTTTTGTGGTCAGGACGAACAGAAGAAGCATTAAATACAATATTTGATGACATCTTACAA
AGACCACTTGATGCTGAATATATTGCTCTACTTCAAAATTCACAAATACAAACCAATTTT
GCTAACATTTATCGTGGATATGGCATTTTCAAACATGATCCTACGACACAGAAAGCAATT
TGTATTCAACGTGACATTCAACACTTTAACGGAGAGAAACGTCCAATTGTTTGGGTGTAT
AGTGGAATTGGCAGTCAATGGGCAGAAATGGGAACTGATTTAATGAATATTCCCATTTTT
GCAGAAACAATTAATAAATGTCATAATTTGCTTGCACCAAAGGGTATCAATTTGAAACAT
ATTATTACTTCACCTGATAAATCATTGTTTAACAACGTTCTCAATTCATACGTTGGTATT
GTCTCAATTGAAATTGCATTGACAAATATACTCAAGGCCATAGGCATTGTACCGGATTAC
ATCATAGGTCATTCAGTTGGTGAGATGGGCTGTGCATATGGCGATGGTTGTTGGACAGCT
GAGGAAACAATTTTAGCAGCATACGCTCGTGGTGTTGCAAGTTGTGAATCTAAAACTATA
GATGGTGCAATGGCTGCTGTTGGATTAAATTTCCGTGAAGTTGAAAAATCTTTACCTTCA
ACTATAGATATTGCTTGTCATAATGGCGCTGACTCAACCACCATTTCAGGGCCAGC
>g5437.t2 Gene=g5437 Length=678
MSKSEQINGIDMDGEAVVVSGISGRFPNADNVKEFEYNLYNKIDMTDEDESRWKHFHPEV
PARTGKIRNLEKFDASFFSILNKHANWMDPQCRCLLEHAYEAIIDAGISPQSLVGSRTGV
FIGCCFSDSRDVFFYKTPVKEGYGVFGNANFYLSNRLSYALGLCGPSFTVDTACSSSAYA
LDCAYKYIMSGACDSAIVGGSQLVLNLTSTVEYSRLRILAPDGEFCRPFDENATGFTRAD
TISVIFLQRQKDSKRVYAQLMHTNSNNDGFKKEGSSFPSRVMQQKLMEDFFKQSKIDPSL
IDFVEAHSTGTRLGDPEEVAAIDEVFCKNKHRKKPLPIGSVKSNMGHAEASSGVASIAKI
LLAFENKKIAPNINVTNMRKDIPSFAEGRIRVVTEVEDLAGPYISMNSFGLGGANAHCLF
KGNLKEKVNHGIPSDDLGRMVLWSGRTEEALNTIFDDILQRPLDAEYIALLQNSQIQTNF
ANIYRGYGIFKHDPTTQKAICIQRDIQHFNGEKRPIVWVYSGIGSQWAEMGTDLMNIPIF
AETINKCHNLLAPKGINLKHIITSPDKSLFNNVLNSYVGIVSIEIALTNILKAIGIVPDY
IIGHSVGEMGCAYGDGCWTAEETILAAYARGVASCESKTIDGAMAAVGLNFREVEKSLPS
TIDIACHNGADSTTISGP
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 15 | g5437.t2 | CDD | cd00833 | PKS | 15 | 419 | 4.93995E-153 |
| 13 | g5437.t2 | Gene3D | G3DSA:3.40.47.10 | - | 13 | 441 | 4.9E-133 |
| 12 | g5437.t2 | Gene3D | G3DSA:3.30.70.3290 | - | 442 | 514 | 2.0E-7 |
| 14 | g5437.t2 | Gene3D | G3DSA:3.40.366.10 | - | 515 | 678 | 2.8E-48 |
| 5 | g5437.t2 | PANTHER | PTHR43775 | FATTY ACID SYNTHASE | 11 | 678 | 4.3E-262 |
| 6 | g5437.t2 | PANTHER | PTHR43775:SF23 | FATTY ACID SYNTHASE 3 | 11 | 678 | 4.3E-262 |
| 3 | g5437.t2 | Pfam | PF00109 | Beta-ketoacyl synthase, N-terminal domain | 15 | 252 | 5.4E-58 |
| 1 | g5437.t2 | Pfam | PF02801 | Beta-ketoacyl synthase, C-terminal domain | 257 | 375 | 4.2E-34 |
| 4 | g5437.t2 | Pfam | PF16197 | Ketoacyl-synthetase C-terminal extension | 380 | 489 | 1.1E-23 |
| 2 | g5437.t2 | Pfam | PF00698 | Acyl transferase domain | 517 | 678 | 5.7E-38 |
| 11 | g5437.t2 | ProSitePatterns | PS00606 | Beta-ketoacyl synthases active site. | 165 | 181 | - |
| 10 | g5437.t2 | SMART | SM00825 | Beta-ketoacyl synthase | 17 | 418 | 2.2E-100 |
| 9 | g5437.t2 | SMART | SM00827 | Acyl transferase domain in polyketide synthase (PKS) enzymes. | 519 | 678 | 1.0E-5 |
| 8 | g5437.t2 | SUPERFAMILY | SSF53901 | Thiolase-like | 12 | 420 | 1.1E-64 |
| 7 | g5437.t2 | SUPERFAMILY | SSF52151 | FabD/lysophospholipase-like | 516 | 637 | 1.46E-27 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5437/g5437.t2; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5437.t2.fa.iupred3.txt does not exist
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0016746 | acyltransferase activity | MF |
| GO:0004315 | 3-oxoacyl-[acyl-carrier-protein] synthase activity | MF |
| GO:0016740 | transferase activity | MF |
| GO:0006633 | fatty acid biosynthetic process | BP |
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