Gene loci information

Transcript annotation

  • This transcript has been annotated as Fatty acid synthase.

Parent gene

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 g4200 g4200.t1 isoform g4200.t1 50060 54316
chr_2 g4200 g4200.t1 exon g4200.t1.exon1 50060 50484
chr_2 g4200 g4200.t1 cds g4200.t1.CDS1 50060 50484
chr_2 g4200 g4200.t1 exon g4200.t1.exon2 50530 50660
chr_2 g4200 g4200.t1 cds g4200.t1.CDS2 50530 50660
chr_2 g4200 g4200.t1 exon g4200.t1.exon3 50724 50796
chr_2 g4200 g4200.t1 cds g4200.t1.CDS3 50724 50796
chr_2 g4200 g4200.t1 exon g4200.t1.exon4 50852 52232
chr_2 g4200 g4200.t1 cds g4200.t1.CDS4 50852 52232
chr_2 g4200 g4200.t1 exon g4200.t1.exon5 52282 53095
chr_2 g4200 g4200.t1 cds g4200.t1.CDS5 52282 53095
chr_2 g4200 g4200.t1 exon g4200.t1.exon6 53271 54316
chr_2 g4200 g4200.t1 cds g4200.t1.CDS6 53271 54316
chr_2 g4200 g4200.t1 TSS g4200.t1 NA NA
chr_2 g4200 g4200.t1 TTS g4200.t1 NA NA

Sequences

>g4200.t1 Gene=g4200 Length=3870
ATGAATGCTCAAAAAATTGAAAGTGATGATGTGGTTATAACTGGAATTGCTGGTAGATTC
CCAAAGTCTCGTAACATTCAAGAATTTGCATCAAATTTGTTCAATAAAGTCGACATGATT
GATGATAGTGATGAACGTTTTATAAATGTTCTTGATGATGTACCACACCGTTTTGGAAAA
ATTCCCGACCTCGACAAATTTGATGCTTCATTTTTTTCAATGTTGAAGCAGTTAGCAAAG
TACACTGATCCACAGATGAGGATTTTACTTGAACATTCATATGAAGCAATTTTAGATGCA
GGAATTTCTCCTCAATCTTTAATCGGAAGCAATACTGGTGTTTTCATCGGTTGTAGTTCT
TCAGAAACAAAAAATTTCTATACTAAAAGTGTAATTCCAATACCTAAAGATATATCTATT
CATGGAAATGGAATATTTTATTTGGCAAATCGTATTTCATATACTTTTGGATTGCATGGA
CCTTCATTAGTTTTAGATTCAGCTTGCTCCAGTGCATCTTATGCATTAGATTGTGCTTAC
CAATATTTAAAATCTGGTAAATGTCATGCTGCTTTAGTTGCTGGAACTAATCTCATTTCA
ACTCCACATGTGACAGAACAATTCGTTGGAATGAAATTGCTTGCAAGTGATGGAATTTCA
AAAATATTTGATGAAGATTCAAAAGGTTTTGTTCGTGCTGAAACAATTAGTGTAATTTTC
TTACAAAAAAGAAAAGATGCAAAAAGAATTTATGCTCATTTGATTTATTCACTTTCTAAT
AATGATGGCTTTAAGATCGAAGGATCATCTTTACCTTCTAAAGAAATGCAACAAAAACTT
ATAAAAAAATTCTATCAAGATATCAATTTTGATCCACATGAAATTAAATTTTTTGAAGCT
CATGCTACAGGCACTTTTAAAGGCGACATACAAGAAGTTAATGCAATTGATGCTATTTTA
TGTCAAAATCGATCTGATCAGTTAGTTATTGGTAGTGTAAAGTCTAATATTGGACATGCT
GAGCCTGCTAGTGGATCTGCTTCGATTGCTAAAATTTTGAATGCTCTTGAAAATGGAAAA
TTTCCACCTAATATCAATTTATTTAATCTTCGTGAGGATATTCCAGCTTTTAAAGAAAAT
CGTATTCTTGTTGCTACCGATTCCGTTGCATTAGGTTCACCTTATATTGCTATGAATTCT
TTCGCTCTTGGTGGTTCAAATGTTCATTTGTTATTTAAACAAAATACAAAAGAAAAATTA
AATCAAGTTCAAGATTATGAGATTGAAAGAATGGTGTTGTGGTCAGGAAGAACTGAAGAA
GCAATTCATGCGATTTTTGATGATATCACAAGTCGACCACTTGATATTGAACACATTGCA
TTACTACAGAATTCTCAGAATCTTACACCTGATGCAAATTCTTATCGTAGTTATGGAATC
TTTAAAAATGATCAAGAAAAAGCCACATGCATTGATCGAAATATTCAATATTTTGATGGC
ATTAGAAAAGCAATTGTTTTTATTTTTGGTGGTATGGGAACACAGTGGCATGGAATGGGA
AGAGAGTTAATTAAGATTCCACTATTTGCTGAATCAATTGAAATAACTCATGAAATATTA
TTAAAAAAAGGCATTAATTTAAAAGAAATTTTATATGCAATTGATGAGAATATTTTTGAT
AGAATCTTAGAAACTGCTCTTTGCTTTATAGCTATACAGATTGGTTTGACTGATATTTTA
AACACTTTGAACATTAAACCTGATTTTATTGTTGGTCACTCAGCAGGTGAAATCGTTTAT
TCTTATTATGATGGATGTTTGACAAGAGAAGAAGCTTTGACTTTGACTTATTATAGAGCT
AAAACTATGTCAAATTTAGTAATAATTGAAGGAGCAATGGCAGCTGTTGGAATGCATTAT
AGTGAAATTGAGAAAATTTTACCTAAAGATATTGATATCGCTTGTCACAACTGTCAACAA
TCTTCAACAATCAGTGGACCAAAGAAAGTGAAGTCACTTGTGCTGGAATTCCATTTCAGT
CGATATATGACAGAGGCTGCTAAAGAATATGAGAAAAAATTACTTGAAATCCTCAAAAAT
CCTAAAGTTCGTTCATCAAAATGGTTTACAACAAATTATATTGAAGATAATGAAGAAAAT
AAATTTTGTAATGCAAAATATTATGCTGACAATGTCAAAAATCCTGTTCATTTTGAAGAA
GCTACATCAAAATTACCTAAAAATTCAATCACTATAGAAATCTCTCCAAATGGAATTTTT
CAATCTTTTCTGAAATCAACATTAAGTGAAAGTATTTATGTTACTCTCACAGATAAGAAT
GAAAATGATGGTAGAAGTTTTTTCATGAAATCTCTTGGGAAAATCTTTCAATCTGGAGTA
GATTTTGATATAAGCAAACTTTATCCAGCTGTTGATTTTCCAGTATCACGAGGCACACCT
ATGATTTCACCAATTATCAAATGGAATCATCAAGAAAATCATTTTGTTCCTAAATGTGAC
AATTCATTGGAATATCAACGTGAAGCTATAATTTTGAATTTTAAAGACAAAGATCTTGAA
TATTTGACTCATCATATTATTGATGAAAGAGTCCTAGTTCCGGCTGCTTTTTGGGTTTTT
TACATTTGGAAACAATTTGCTAAAATGAATGATTCTGATTTTGATAAACTTAAAGTAGTT
TTTAAAGATTTAGAATTTTTTAGAGTCACTATTAATTTGAAGCAAGAAATTGAAGTAGTT
TCAACAATTCAACGATCGAATGGAAGATTTGAAATCATGGAAGGAAAAAATTTAATTGCT
AGTGATAGCATAGCTCAAACTGGTATTTTAAGCACAAAAGTTGAAAAAATTTTGTTACCA
TTAAAATTGAAAAAACTTTCAATTGACCCTGTTTTCCATAAACTGTCAATTGATGAGCAA
TCATTGACATATTTTGAAAGAGACAAATATGATTTAAATTATATGAAATGTGGTGGAATT
GAAATTGAAGAACTACAAACTTTTTCAATAAATCGATGTCAACATAAACATTTATTAAAA
GAATATTCAAAATTTATTTCTTTTGAGAATTGTAAAGAAAAGTTTGAAATATTTGATGCA
TTGAAAATTATGATTTGCATCTTGATTGATTTGGAAATGAAATATAAATACAATTTTATT
GAAATCAATTACCAACAAGAAGACTTTATCTATAAGCAAATTCACAAGCTTTTCAAAATA
TTCCCGATTGCTGCTGATATTAAACTATTAACTATAACTATAGAATTAGACGATATTGAA
GTATTAATTTATGAACAAGATGTTGTAAATTTTAATAATATTGATGTCATTTTTACACAT
AATTGTTCAAAAGATAATAAATTCGTTAATGTCATTGGAAAATTTCTCAACACAAATAAT
ACTTTGATATCTAAAGAGAATTTCAATACAGAAATACCTAATAACCTCGAAATTCTCTCA
AAATTGCAACTTACAAGCGAGAATGTTTTGCTAATGTTGAAATTGAAACTTTCAAAGAAA
GAATTGAAGGTAAAACCTATTGAGATAACTTCAGAATCTATAGATTGGCTTGAAGATCTT
AAGGAAGAAATCAAAAACTTTTCAAACAATGATTTTGATTCAATTGTTTTATATTCTCAA
AAATCTAAAGGAATTTCTGGATTACTTGGCTTTTTCAACTGTTTAAAATTAGAATTTAAT
AAAATAAGAATTAAATGCGTTATAATTGAAGACATTAATGCACCTGAATTTGATATTGAT
AGTTCATTTTATAAAAATCAAATAGAAAAAGGATTTGATATCAATGTACTAAAAAAAATG
AATGGGGCAGTTTTCGACATATTGAATTAA

>g4200.t1 Gene=g4200 Length=1289
MNAQKIESDDVVITGIAGRFPKSRNIQEFASNLFNKVDMIDDSDERFINVLDDVPHRFGK
IPDLDKFDASFFSMLKQLAKYTDPQMRILLEHSYEAILDAGISPQSLIGSNTGVFIGCSS
SETKNFYTKSVIPIPKDISIHGNGIFYLANRISYTFGLHGPSLVLDSACSSASYALDCAY
QYLKSGKCHAALVAGTNLISTPHVTEQFVGMKLLASDGISKIFDEDSKGFVRAETISVIF
LQKRKDAKRIYAHLIYSLSNNDGFKIEGSSLPSKEMQQKLIKKFYQDINFDPHEIKFFEA
HATGTFKGDIQEVNAIDAILCQNRSDQLVIGSVKSNIGHAEPASGSASIAKILNALENGK
FPPNINLFNLREDIPAFKENRILVATDSVALGSPYIAMNSFALGGSNVHLLFKQNTKEKL
NQVQDYEIERMVLWSGRTEEAIHAIFDDITSRPLDIEHIALLQNSQNLTPDANSYRSYGI
FKNDQEKATCIDRNIQYFDGIRKAIVFIFGGMGTQWHGMGRELIKIPLFAESIEITHEIL
LKKGINLKEILYAIDENIFDRILETALCFIAIQIGLTDILNTLNIKPDFIVGHSAGEIVY
SYYDGCLTREEALTLTYYRAKTMSNLVIIEGAMAAVGMHYSEIEKILPKDIDIACHNCQQ
SSTISGPKKVKSLVLEFHFSRYMTEAAKEYEKKLLEILKNPKVRSSKWFTTNYIEDNEEN
KFCNAKYYADNVKNPVHFEEATSKLPKNSITIEISPNGIFQSFLKSTLSESIYVTLTDKN
ENDGRSFFMKSLGKIFQSGVDFDISKLYPAVDFPVSRGTPMISPIIKWNHQENHFVPKCD
NSLEYQREAIILNFKDKDLEYLTHHIIDERVLVPAAFWVFYIWKQFAKMNDSDFDKLKVV
FKDLEFFRVTINLKQEIEVVSTIQRSNGRFEIMEGKNLIASDSIAQTGILSTKVEKILLP
LKLKKLSIDPVFHKLSIDEQSLTYFERDKYDLNYMKCGGIEIEELQTFSINRCQHKHLLK
EYSKFISFENCKEKFEIFDALKIMICILIDLEMKYKYNFIEINYQQEDFIYKQIHKLFKI
FPIAADIKLLTITIELDDIEVLIYEQDVVNFNNIDVIFTHNCSKDNKFVNVIGKFLNTNN
TLISKENFNTEIPNNLEILSKLQLTSENVLLMLKLKLSKKELKVKPIEITSESIDWLEDL
KEEIKNFSNNDFDSIVLYSQKSKGISGLLGFFNCLKLEFNKIRIKCVIIEDINAPEFDID
SSFYKNQIEKGFDINVLKKMNGAVFDILN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
20 g4200.t1 CDD cd00833 PKS 9 411 1.92505E-128
18 g4200.t1 Gene3D G3DSA:3.40.47.10 - 8 414 2.2E-119
15 g4200.t1 Gene3D G3DSA:3.30.70.3290 - 429 834 3.3E-124
19 g4200.t1 Gene3D G3DSA:3.40.366.10 - 501 799 3.3E-124
16 g4200.t1 Gene3D G3DSA:3.10.129.110 - 849 944 9.3E-16
17 g4200.t1 Gene3D G3DSA:3.10.129.110 - 945 1016 3.7E-5
14 g4200.t1 Gene3D G3DSA:3.40.50.720 - 1181 1286 2.3E-7
6 g4200.t1 PANTHER PTHR43775 FATTY ACID SYNTHASE 5 941 0.0
8 g4200.t1 PANTHER PTHR43775:SF23 FATTY ACID SYNTHASE 3 5 941 0.0
5 g4200.t1 PANTHER PTHR43775 FATTY ACID SYNTHASE 942 1279 0.0
7 g4200.t1 PANTHER PTHR43775:SF23 FATTY ACID SYNTHASE 3 942 1279 0.0
3 g4200.t1 Pfam PF00109 Beta-ketoacyl synthase, N-terminal domain 9 247 2.1E-55
1 g4200.t1 Pfam PF02801 Beta-ketoacyl synthase, C-terminal domain 251 367 3.7E-29
4 g4200.t1 Pfam PF16197 Ketoacyl-synthetase C-terminal extension 372 480 3.5E-20
2 g4200.t1 Pfam PF00698 Acyl transferase domain 506 794 1.0E-39
13 g4200.t1 ProSitePatterns PS00606 Beta-ketoacyl synthases active site. 160 176 -
12 g4200.t1 SMART SM00825 Beta-ketoacyl synthase 11 415 1.1E-91
11 g4200.t1 SMART SM00827 Acyl transferase domain in polyketide synthase (PKS) enzymes. 508 781 7.6E-17
10 g4200.t1 SUPERFAMILY SSF53901 Thiolase-like 7 366 7.21E-61
9 g4200.t1 SUPERFAMILY SSF52151 FabD/lysophospholipase-like 505 771 3.4E-34

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: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