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_1 g13484 g13484.t1 isoform g13484.t1 30401789 30403100
chr_1 g13484 g13484.t1 exon g13484.t1.exon1 30401789 30402478
chr_1 g13484 g13484.t1 cds g13484.t1.CDS1 30401789 30402478
chr_1 g13484 g13484.t1 exon g13484.t1.exon2 30402540 30402889
chr_1 g13484 g13484.t1 cds g13484.t1.CDS2 30402540 30402889
chr_1 g13484 g13484.t1 exon g13484.t1.exon3 30402947 30403100
chr_1 g13484 g13484.t1 cds g13484.t1.CDS3 30402947 30403100
chr_1 g13484 g13484.t1 TSS g13484.t1 NA NA
chr_1 g13484 g13484.t1 TTS g13484.t1 NA NA

Sequences

>g13484.t1 Gene=g13484 Length=1194
ATGTTGGCACTTGCAAGAATTCCGGATAATATTCGAGACAGGATTGCTCAACAATGTGTT
TTAGGTTTTGAATTTTCAGGCCTAAAAGCTGATAATACACGTGTAATGGGAATTGCTTTG
AATGCCGGAGGTTTATCCACACATTATGACAGCAAATACTCAATTCTTTGGAATGTACCT
GAAAATTGGAGTTTAGAAGAAGCAGCGACTGTTCCATTGGTTTATTTCACTGTCTATTTT
GCATTTTTTGTCACAACAAAAATCAAAAGTGGCAAAAGCATTTTAATTCATTCAGGAACC
GGTGGTGTGGGACAAGCTGCGATTCAAGTTGCTTTTGCTTATGGTCTTGAAGTTTTCACA
ACAGTTGGCTCAGATGACAAGAAGGAATTTTTACTTACGAAGTTTCCTAAACTGAAACCT
GAAAATATTGGAAATTCAAGAAATACAACATTCGAGAGAATGATATTGGAAAATACTAAA
GGAAATGGTGTCGATTATGTTTTGAATTCCCTTACTGATGATAAACTCAAAGCATCGATT
AGATGTCTTGCAAAGGACGGTACATTGCTTGAGATAGGCAAATATGATATGTTGAATGGA
ACGAAATTAGACATGAGATATCTGACGAAGCGTATCAAAGTTAAGGCCGTACATTTTGAT
GACCTTCCAGTTGACTCTGAAGAGATGGAGTATACTTATCAACTAATTGACAAAGATCTA
AAATCAGGCATAATTAAGCCACTAAACACGACAGTTTTTGATGCTAATGATGTTGAAGAG
GCTTTCCGATACATGGCATCAGGCAAGCATATTGGAAAAGTTCTCCTAAAAGTTAGGCAA
AATGAAGACGATGAAAGTTCATTGCCCTTGATGGCATTGAATCGAGTGTTTGTTGATGCG
AATGAAACAGTTTTCATTGCTGGTGGTTTAGGAGGATTTGGAATGGAACTTGCTGATTGG
TTAATCCTTCGAGGATGTAGGAAAGTTATGTTAAGTTCAAAGAGAGGAATAACAAGCAAA
AATCAATTCTTGAAAATTGAATTATGGAAAACTTATGGAGCAACAGTGAAAGTAACAACA
GCTGATATCACAACCGAGCAAGGATGTGAACAAGCTCTGAATGAAGCATCACAAATTGGA
CCAGTTACAGCCATTTTCAATCTTGCAGTTGCACTTCGTGATGGAAATTTTTGA

>g13484.t1 Gene=g13484 Length=397
MLALARIPDNIRDRIAQQCVLGFEFSGLKADNTRVMGIALNAGGLSTHYDSKYSILWNVP
ENWSLEEAATVPLVYFTVYFAFFVTTKIKSGKSILIHSGTGGVGQAAIQVAFAYGLEVFT
TVGSDDKKEFLLTKFPKLKPENIGNSRNTTFERMILENTKGNGVDYVLNSLTDDKLKASI
RCLAKDGTLLEIGKYDMLNGTKLDMRYLTKRIKVKAVHFDDLPVDSEEMEYTYQLIDKDL
KSGIIKPLNTTVFDANDVEEAFRYMASGKHIGKVLLKVRQNEDDESSLPLMALNRVFVDA
NETVFIAGGLGGFGMELADWLILRGCRKVMLSSKRGITSKNQFLKIELWKTYGATVKVTT
ADITTEQGCEQALNEASQIGPVTAIFNLAVALRDGNF

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g13484.t1 CDD cd05195 enoyl_red 1 276 0
9 g13484.t1 Gene3D G3DSA:3.90.180.10 - 1 296 0
8 g13484.t1 Gene3D G3DSA:3.40.50.720 - 297 397 0
3 g13484.t1 PANTHER PTHR43775 FATTY ACID SYNTHASE 1 395 0
4 g13484.t1 PANTHER PTHR43775:SF23 FATTY ACID SYNTHASE 3 1 395 0
1 g13484.t1 Pfam PF00107 Zinc-binding dehydrogenase 102 230 0
2 g13484.t1 Pfam PF08659 KR domain 303 396 0
7 g13484.t1 SMART SM00829 PKS_ER_names_mod 1 276 0
6 g13484.t1 SUPERFAMILY SSF51735 NAD(P)-binding Rossmann-fold domains 62 226 0
5 g13484.t1 SUPERFAMILY SSF51735 NAD(P)-binding Rossmann-fold domains 300 395 0

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:0055114 NA NA
GO:0016491 oxidoreductase 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.

Raw TPM values