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.t5 TTS g3715.t5 27605604 27605604
chr_3 g3715 g3715.t5 isoform g3715.t5 27605725 27607992
chr_3 g3715 g3715.t5 exon g3715.t5.exon1 27605725 27605979
chr_3 g3715 g3715.t5 cds g3715.t5.CDS1 27605725 27605979
chr_3 g3715 g3715.t5 exon g3715.t5.exon2 27606064 27606157
chr_3 g3715 g3715.t5 cds g3715.t5.CDS2 27606064 27606157
chr_3 g3715 g3715.t5 exon g3715.t5.exon3 27606320 27606689
chr_3 g3715 g3715.t5 cds g3715.t5.CDS3 27606320 27606689
chr_3 g3715 g3715.t5 exon g3715.t5.exon4 27606754 27606929
chr_3 g3715 g3715.t5 cds g3715.t5.CDS4 27606754 27606929
chr_3 g3715 g3715.t5 exon g3715.t5.exon5 27606997 27607142
chr_3 g3715 g3715.t5 cds g3715.t5.CDS5 27606997 27607142
chr_3 g3715 g3715.t5 exon g3715.t5.exon6 27607757 27607992
chr_3 g3715 g3715.t5 cds g3715.t5.CDS6 27607757 27607789
chr_3 g3715 g3715.t5 TSS g3715.t5 NA NA

Sequences

>g3715.t5 Gene=g3715 Length=1277
TGAGAAAAAACAATCCAACTTATCGACAAAAAATTTATCCAATCAATGGCGACTGCATTT
TGCCTGGCTTGGGCATCAGTCTAAGTGACCGTGCACTGCTCATCAAACACTGCAATATTG
TCTTTCATGGTGCAGCTACAGTTAGATTTGATGAGAAACTGAAACTTGCTCTTGCAATCA
ATGTTTGCGGTACAAGAGAAATTATGAATTTAGCTAAAGAAATGGAAAATCTTCAGGCAT
TTCTTCATATTTCAACTGCATATGCAAATTGTCCACATCCTGAAATTGAAGAAAAATTTT
ATTCAACACCAATCAGCGGAGAGAATGGTACATATTTGGCTGAAATGTTAGATGAAGAAA
CATTAGAAAAAATGACACCAGCACTCTTGAGAGACTGGCCCAATACATATACATATACAA
AGTCATTGGCAGAAGATTATGTTAGAGCACATTCTAAAAATTTACCAGTTGCTGTATTTC
GTCCTGCAATTGTAATACCAACATTTAGAGAACCACTTAGAGGTTGGATCGATAACATGT
ATGGCCCAACTGGAATTGTTATTGGAGTTGCTGCCGGACTTTTGAGAGTTTTACACATAA
ACAAAGAGAACAGAGCTGAGCTTGTACCCGTTGATATGTCTGTAAATTCGCTCATTGCCT
GTGCTTATGATGTCGGTATAAATAATCATTATGATGAGCCACCAATCTACAATTATGTTA
CAAGCAAAAAAAATTCTATTTCATGGCAAGATTATTGCGATTATAGCATTTTAAATGGAG
TAACCGCACCATTATCGAAAATGGCTTGGTACTTTACATTTACAATGGTCTCATCTAAAA
ATCTTGCTATATTATTGACCTTCCTCTATCATACATTACCGGCTGCAATTATTGATGGTG
TTCTTGTATTGTGTGGAAAAACTCCAAAATTACTCGACACTTACCGAAAAATTCACAAAC
TCTGCAATGTTTTATCTTATTTCACAAATCGTGTATGGAGCTTCAAAAACCACAATGTAG
AAAACCTCTGGCGTAAGCTTGACATCAAGGACAAAGAATTGTTCTTCTTTGACATGAATG
ATATCGAATGGCCAATGTTTTTTGTTGAAAGTATTTATGGCATTAGAACATATCTGATGA
AGGAAGATCCAAAGACAATACCTGAGGCTTGCAAAAGGCTTAAAAAGATGAGAATTATTC
ACTATGTTACTGTTTATGTTATTAGATTTGGAGTTTTGTATTTTCTATATAAAATTCTTA
AATCAATTTTATTTTAA

>g3715.t5 Gene=g3715 Length=357
MNLAKEMENLQAFLHISTAYANCPHPEIEEKFYSTPISGENGTYLAEMLDEETLEKMTPA
LLRDWPNTYTYTKSLAEDYVRAHSKNLPVAVFRPAIVIPTFREPLRGWIDNMYGPTGIVI
GVAAGLLRVLHINKENRAELVPVDMSVNSLIACAYDVGINNHYDEPPIYNYVTSKKNSIS
WQDYCDYSILNGVTAPLSKMAWYFTFTMVSSKNLAILLTFLYHTLPAAIIDGVLVLCGKT
PKLLDTYRKIHKLCNVLSYFTNRVWSFKNHNVENLWRKLDIKDKELFFFDMNDIEWPMFF
VESIYGIRTYLMKEDPKTIPEACKRLKKMRIIHYVTVYVIRFGVLYFLYKILKSILF

Protein features from InterProScan

Transcript Database ID Name Start End E.value
18 g3715.t5 CDD cd09071 FAR_C 221 312 2.0596E-35
8 g3715.t5 Gene3D G3DSA:3.40.50.720 - 1 210 2.0E-29
3 g3715.t5 PANTHER PTHR11011:SF60 FATTY ACYL-COA REDUCTASE 2 1 350 2.0E-118
4 g3715.t5 PANTHER PTHR11011 MALE STERILITY PROTEIN 2-RELATED 1 350 2.0E-118
1 g3715.t5 Pfam PF07993 Male sterility protein 1 149 3.7E-33
2 g3715.t5 Pfam PF03015 Male sterility protein 222 314 4.5E-30
11 g3715.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 111 -
17 g3715.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 112 130 -
9 g3715.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 131 213 -
16 g3715.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 214 236 -
13 g3715.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 237 293 -
14 g3715.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 294 311 -
10 g3715.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 312 330 -
15 g3715.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 331 349 -
12 g3715.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 350 357 -
7 g3715.t5 SUPERFAMILY SSF51735 NAD(P)-binding Rossmann-fold domains 2 159 2.22E-10
6 g3715.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 216 238 -
5 g3715.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 331 349 -

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