Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative fatty acyl-CoA reductase CG5065.

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 g1056 g1056.t1 TSS g1056.t1 7883606 7883606
chr_3 g1056 g1056.t1 isoform g1056.t1 7883622 7886092
chr_3 g1056 g1056.t1 exon g1056.t1.exon1 7883622 7884074
chr_3 g1056 g1056.t1 cds g1056.t1.CDS1 7883622 7884074
chr_3 g1056 g1056.t1 exon g1056.t1.exon2 7884132 7884281
chr_3 g1056 g1056.t1 cds g1056.t1.CDS2 7884132 7884281
chr_3 g1056 g1056.t1 exon g1056.t1.exon3 7884388 7884508
chr_3 g1056 g1056.t1 cds g1056.t1.CDS3 7884388 7884508
chr_3 g1056 g1056.t1 exon g1056.t1.exon4 7884681 7884730
chr_3 g1056 g1056.t1 cds g1056.t1.CDS4 7884681 7884730
chr_3 g1056 g1056.t1 exon g1056.t1.exon5 7884787 7884882
chr_3 g1056 g1056.t1 cds g1056.t1.CDS5 7884787 7884882
chr_3 g1056 g1056.t1 exon g1056.t1.exon6 7884944 7885100
chr_3 g1056 g1056.t1 cds g1056.t1.CDS6 7884944 7885100
chr_3 g1056 g1056.t1 exon g1056.t1.exon7 7885392 7885524
chr_3 g1056 g1056.t1 cds g1056.t1.CDS7 7885392 7885524
chr_3 g1056 g1056.t1 exon g1056.t1.exon8 7885592 7885849
chr_3 g1056 g1056.t1 cds g1056.t1.CDS8 7885592 7885849
chr_3 g1056 g1056.t1 exon g1056.t1.exon9 7885915 7886092
chr_3 g1056 g1056.t1 cds g1056.t1.CDS9 7885915 7886092
chr_3 g1056 g1056.t1 TTS g1056.t1 NA NA

Sequences

>g1056.t1 Gene=g1056 Length=1596
ATGGAAAATTCAAAAAAGCTCACAATAGCTGAATTTTACAATGGTAAAAGCATTTTCATA
ACAGGCGGCATGGGTTTCTTAGGGAAGGTCATAGTCGAAAAACTTTTACGTTCATGTTCC
GGAATTGAAAAGATTTTTCTATTGGCAAGATCAAAGAAAGGCAAAAATGTAAATGACCGA
CTTGATGAGTTTATAAATTCACCGCCGATGACGTTATTACGAGAAAAAAATCCAAAAGTA
TTCAATAAAATTATTATGATTGAAGGCGATGTATCAGAGGAAAAATTAGGAATTTCGGAA
GAAAATCTAAAGTTGATTAGTGAGAATGTTTCAATTTTCATCCATTCAGCTGCAACAATT
AATTTTAATGAACCATTAAAAATTGCAATTAAGACAAATCTGCAATCAGTTAAAGAAATC
ATGAAGATGGCAAGAAATTCTAAAAAATTAGATGCATTAATACATGTTTCAACTGCTTAC
ACAAACTGGTTTGAGTATGACTGCGCTAAAGGATTAGTGGAAGAAAAAATTTACACTAAT
GAATTTAAACCAAATGATATCATCAATTTGAGCCAATCAATGTCGCAAGAATTACTTAAT
AAGCTCACTCCGTCTATGCTTGGAAAGCATACAAATACTTATACATTTACAAAGAATCTT
GCAGAGCAATTGATTGTAAACGAAGGAAAAGATTTGCCTGTTGCTATAATCCGACCTTCG
ATGGTTTTAGGAAGTTTAAAGGAACCATTTCCTGGTTGGCTTGATAGTTGGGCTGGTCCA
ACGGCTTATGCCTATTTTTTATCAAGAGGATTTTTGAGATCATTTCATATTCATAAACAT
AATATTGGTGAGATTGTTCCTGTTGACATGACAGTGAACTTAATTATCGCATCAGCATGG
AAAGTTGGTATAAATAAATCGCAAAATGAACCGTTGATTTATCATAATGTTAGTGGTGAT
GCAAATCCAATAAGTTGGAAAGGATATTTTGACCTATGTGAAATAAACGCAAAAAAATTT
CCACTTGATGACGTCTTTTGGTATCCAAGAATACGATACAGAAAAACAGCACTTGCTACC
AATATTGATGCTTTTTTTACTCAACGTATTCCTGCATATTTGATTGATTTCGCATCGATT
ATTATGGGAAAAAAACCAAAAATGGTTCGACTCCAAGATAAAATGTATCACGGCTACAAC
TGTGTAAAATTTGCATCAACAAGTCCTGTCAAATTTGAAAGCAAAAATTATGAAAAATTG
ATCGAATCAATGAATCCAAATGATGTAAAGGAATTTGACTTTGATGTTAGGAAAATTAAT
TGGAATCAATATATTGAAGATTATTTTCTTGGTGCACGCAAATATTTGTGGAATTCTACA
TCGACCGATTTTGCTGCTGGAAGGAAGAAAATACAGATGTTAAAATACGCAAATTTTTGT
CTTGTTGGCACCACATTGGCTGGATCATTATTTCTTTTAAATAAACTTAGGAATTCTCTA
AAGTGTGAAGAAGAAGGAAAAGAAATAGAGCAACTGAAGCCAAAACTTTTGAATATTCCT
GTTTGGCAATGGAAACAAAGACAAGAAGTTCACTAG

>g1056.t1 Gene=g1056 Length=531
MENSKKLTIAEFYNGKSIFITGGMGFLGKVIVEKLLRSCSGIEKIFLLARSKKGKNVNDR
LDEFINSPPMTLLREKNPKVFNKIIMIEGDVSEEKLGISEENLKLISENVSIFIHSAATI
NFNEPLKIAIKTNLQSVKEIMKMARNSKKLDALIHVSTAYTNWFEYDCAKGLVEEKIYTN
EFKPNDIINLSQSMSQELLNKLTPSMLGKHTNTYTFTKNLAEQLIVNEGKDLPVAIIRPS
MVLGSLKEPFPGWLDSWAGPTAYAYFLSRGFLRSFHIHKHNIGEIVPVDMTVNLIIASAW
KVGINKSQNEPLIYHNVSGDANPISWKGYFDLCEINAKKFPLDDVFWYPRIRYRKTALAT
NIDAFFTQRIPAYLIDFASIIMGKKPKMVRLQDKMYHGYNCVKFASTSPVKFESKNYEKL
IESMNPNDVKEFDFDVRKINWNQYIEDYFLGARKYLWNSTSTDFAAGRKKIQMLKYANFC
LVGTTLAGSLFLLNKLRNSLKCEEEGKEIEQLKPKLLNIPVWQWKQRQEVH

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g1056.t1 CDD cd05236 FAR-N_SDR_e 16 341 4.6805E-120
11 g1056.t1 CDD cd09071 FAR_C 366 456 2.31459E-28
6 g1056.t1 Gene3D G3DSA:3.40.50.720 - 3 369 8.7E-70
3 g1056.t1 PANTHER PTHR11011:SF60 FATTY ACYL-COA REDUCTASE 2 8 486 4.0E-148
4 g1056.t1 PANTHER PTHR11011 MALE STERILITY PROTEIN 2-RELATED 8 486 4.0E-148
1 g1056.t1 Pfam PF07993 Male sterility protein 20 295 2.3E-69
2 g1056.t1 Pfam PF03015 Male sterility protein 368 458 1.2E-26
8 g1056.t1 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 475 -
9 g1056.t1 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 476 493 -
7 g1056.t1 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 494 531 -
5 g1056.t1 SUPERFAMILY SSF51735 NAD(P)-binding Rossmann-fold domains 9 302 1.04E-29

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

Pathway

  • This transcript belongs to the following pathways

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