Gene loci information

Transcript annotation

  • This transcript has been annotated as Fatty acyl-CoA reductase wat.

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_3 g3715 g3715.t6 TTS g3715.t6 27605604 27605604
chr_3 g3715 g3715.t6 isoform g3715.t6 27605725 27609647
chr_3 g3715 g3715.t6 exon g3715.t6.exon1 27605725 27605979
chr_3 g3715 g3715.t6 cds g3715.t6.CDS1 27605725 27605979
chr_3 g3715 g3715.t6 exon g3715.t6.exon2 27606064 27606157
chr_3 g3715 g3715.t6 cds g3715.t6.CDS2 27606064 27606157
chr_3 g3715 g3715.t6 exon g3715.t6.exon3 27606320 27606689
chr_3 g3715 g3715.t6 cds g3715.t6.CDS3 27606320 27606689
chr_3 g3715 g3715.t6 exon g3715.t6.exon4 27606754 27606929
chr_3 g3715 g3715.t6 cds g3715.t6.CDS4 27606754 27606929
chr_3 g3715 g3715.t6 exon g3715.t6.exon5 27606997 27607142
chr_3 g3715 g3715.t6 cds g3715.t6.CDS5 27606997 27607142
chr_3 g3715 g3715.t6 exon g3715.t6.exon6 27607757 27608005
chr_3 g3715 g3715.t6 cds g3715.t6.CDS6 27607757 27608005
chr_3 g3715 g3715.t6 exon g3715.t6.exon7 27608109 27608197
chr_3 g3715 g3715.t6 cds g3715.t6.CDS7 27608109 27608132
chr_3 g3715 g3715.t6 exon g3715.t6.exon8 27609449 27609527
chr_3 g3715 g3715.t6 exon g3715.t6.exon9 27609602 27609647
chr_3 g3715 g3715.t6 TSS g3715.t6 NA NA

Sequences

>g3715.t6 Gene=g3715 Length=1504
ATGGCTCCCTTGCAAGAAACAATCGAAGAATACAATGAATTGCAGCAGAGCTCACCGATC
CAGCAATTCTACAAGAATAAAAACATCTTCATTACCGGAGCGACAGGTTTTCTCGGAAAA
GGTTACCTGTGACGTTGAGAGGATTTTTATATTGATTCGAAGTAAGAAAAATGACGATAT
TAACACACGTATGGAAAAAATATTTGAAGATCAATTATTTGATCAAGTGAGAAAAAACAA
TCCAACTTATCGACAAAAAATTTATCCAATCAATGGCGACTGCATTTTGCCTGGCTTGGG
CATCAGTCTAAGTGACCGTGCACTGCTCATCAAACACTGCAATATTGTCTTTCATGGTGC
AGCTACAGTTAGATTTGATGAGAAACTGAAACTTGCTCTTGCAATCAATGTTTGCGGTAC
AAGAGAAATTATGAATTTAGCTAAAGAAATGGAAAATCTTCAGGCATTTCTTCATATTTC
AACTGCATATGCAAATTGTCCACATCCTGAAATTGAAGAAAAATTTTATTCAACACCAAT
CAGCGGAGAGAATGGTACATATTTGGCTGAAATGTTAGATGAAGAAACATTAGAAAAAAT
GACACCAGCACTCTTGAGAGACTGGCCCAATACATATACATATACAAAGTCATTGGCAGA
AGATTATGTTAGAGCACATTCTAAAAATTTACCAGTTGCTGTATTTCGTCCTGCAATTGT
AATACCAACATTTAGAGAACCACTTAGAGGTTGGATCGATAACATGTATGGCCCAACTGG
AATTGTTATTGGAGTTGCTGCCGGACTTTTGAGAGTTTTACACATAAACAAAGAGAACAG
AGCTGAGCTTGTACCCGTTGATATGTCTGTAAATTCGCTCATTGCCTGTGCTTATGATGT
CGGTATAAATAATCATTATGATGAGCCACCAATCTACAATTATGTTACAAGCAAAAAAAA
TTCTATTTCATGGCAAGATTATTGCGATTATAGCATTTTAAATGGAGTAACCGCACCATT
ATCGAAAATGGCTTGGTACTTTACATTTACAATGGTCTCATCTAAAAATCTTGCTATATT
ATTGACCTTCCTCTATCATACATTACCGGCTGCAATTATTGATGGTGTTCTTGTATTGTG
TGGAAAAACTCCAAAATTACTCGACACTTACCGAAAAATTCACAAACTCTGCAATGTTTT
ATCTTATTTCACAAATCGTGTATGGAGCTTCAAAAACCACAATGTAGAAAACCTCTGGCG
TAAGCTTGACATCAAGGACAAAGAATTGTTCTTCTTTGACATGAATGATATCGAATGGCC
AATGTTTTTTGTTGAAAGTATTTATGGCATTAGAACATATCTGATGAAGGAAGATCCAAA
GACAATACCTGAGGCTTGCAAAAGGCTTAAAAAGATGAGAATTATTCACTATGTTACTGT
TTATGTTATTAGATTTGGAGTTTTGTATTTTCTATATAAAATTCTTAAATCAATTTTATT
TTAA

>g3715.t6 Gene=g3715 Length=437
MEKIFEDQLFDQVRKNNPTYRQKIYPINGDCILPGLGISLSDRALLIKHCNIVFHGAATV
RFDEKLKLALAINVCGTREIMNLAKEMENLQAFLHISTAYANCPHPEIEEKFYSTPISGE
NGTYLAEMLDEETLEKMTPALLRDWPNTYTYTKSLAEDYVRAHSKNLPVAVFRPAIVIPT
FREPLRGWIDNMYGPTGIVIGVAAGLLRVLHINKENRAELVPVDMSVNSLIACAYDVGIN
NHYDEPPIYNYVTSKKNSISWQDYCDYSILNGVTAPLSKMAWYFTFTMVSSKNLAILLTF
LYHTLPAAIIDGVLVLCGKTPKLLDTYRKIHKLCNVLSYFTNRVWSFKNHNVENLWRKLD
IKDKELFFFDMNDIEWPMFFVESIYGIRTYLMKEDPKTIPEACKRLKKMRIIHYVTVYVI
RFGVLYFLYKILKSILF

Protein features from InterProScan

Transcript Database ID Name Start End E.value
14 g3715.t6 CDD cd05236 FAR-N_SDR_e 7 267 5.96385E-91
15 g3715.t6 CDD cd09071 FAR_C 301 392 4.11295E-35
8 g3715.t6 Gene3D G3DSA:3.40.50.720 - 1 289 1.1E-53
3 g3715.t6 PANTHER PTHR11011:SF60 FATTY ACYL-COA REDUCTASE 2 2 430 1.5E-150
4 g3715.t6 PANTHER PTHR11011 MALE STERILITY PROTEIN 2-RELATED 2 430 1.5E-150
1 g3715.t6 Pfam PF07993 Male sterility protein 3 229 1.8E-57
2 g3715.t6 Pfam PF03015 Male sterility protein 302 394 6.5E-30
11 g3715.t6 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 293 -
13 g3715.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 294 318 -
9 g3715.t6 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 319 410 -
12 g3715.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 411 429 -
10 g3715.t6 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 430 437 -
7 g3715.t6 SUPERFAMILY SSF51735 NAD(P)-binding Rossmann-fold domains 40 239 3.63E-20
5 g3715.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 296 318 -
6 g3715.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 411 429 -

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 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