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_2 g4283 g4283.t1 isoform g4283.t1 969397 971695
chr_2 g4283 g4283.t1 exon g4283.t1.exon1 969397 969511
chr_2 g4283 g4283.t1 cds g4283.t1.CDS1 969397 969511
chr_2 g4283 g4283.t1 exon g4283.t1.exon2 969565 969948
chr_2 g4283 g4283.t1 cds g4283.t1.CDS2 969565 969948
chr_2 g4283 g4283.t1 exon g4283.t1.exon3 970363 970500
chr_2 g4283 g4283.t1 cds g4283.t1.CDS3 970363 970500
chr_2 g4283 g4283.t1 exon g4283.t1.exon4 970560 970746
chr_2 g4283 g4283.t1 cds g4283.t1.CDS4 970560 970746
chr_2 g4283 g4283.t1 exon g4283.t1.exon5 970809 971184
chr_2 g4283 g4283.t1 cds g4283.t1.CDS5 970809 971184
chr_2 g4283 g4283.t1 exon g4283.t1.exon6 971243 971371
chr_2 g4283 g4283.t1 cds g4283.t1.CDS6 971243 971371
chr_2 g4283 g4283.t1 exon g4283.t1.exon7 971429 971695
chr_2 g4283 g4283.t1 cds g4283.t1.CDS7 971429 971695
chr_2 g4283 g4283.t1 TSS g4283.t1 NA NA
chr_2 g4283 g4283.t1 TTS g4283.t1 NA NA

Sequences

>g4283.t1 Gene=g4283 Length=1596
ATGGGTAAGTGGGCACTTAAGTCTGTGCTAATTAACAACAGCAATATTATAGTTATAAAT
GTCATTTACATTCAAATAGAGACAAATCCACTTGAAGCATTTTATAAGGGATCAACTATT
TTAATGACGGGTGCTAATGGATATTTAGGAAAAACTTTAATTGAAAAATTATTGAGATGT
TTTGATGTTGAGAAAATTTATTTACTTATGCGTGTTAAAAATAATGAAAATGTTGAAAAA
AGATTGGAAAATTTAATCAATGAAACTATTTTTGAACAATTGCGTGAAAGAAATCCAGCT
GTTTTTCGTAAATTGATAGCAATTGAAGTTGATTATACAGCTCATGATTTGAATCTTAAT
ATTGAGACATTAGAAAGACTTCATGCTGAGGTTCAGATTGTCTTCAATATTGTCGCGAGT
GTTCGTTTCAATGAACCATTGCAAGATGCAATCGATATAAATTTTCTTGGTACAAAAAAA
GTTGTCAATTTGGTGTTGGGTATTGAAAAACTCAAATCATTTGTTCATGTTTCGACACTT
TATTCAAATTGCAATCGTGATGATATTGATGAGAAAATTTATGATCACATGCTTAATTAT
CATCAATTAATTCCGATTGCAAAAATTCTAAAAGATGCAAAAAATAAGAAAATGGAAGAA
ATTTTATTTGACGGCTTACCTAATACGTACACATTAACTAAACATTTCGCAGAAAAATTG
GTTTATCATCAAACATTTTTCATACCTTCTGGAATTTTTCGACCTGCAGTTGTTGTGTCA
AATTACAAGGATTTACCAGGTTACATTGAAAATGTGAATGGCCCGAGTATGATTATTGCA
TTGACGGTACGCGGTTATATTCATTGCATATTTGGCGATTCATCGAAACGAGCAAATCTC
ATTCCTGTTGATTATACTATCAATGCTCTAATTGCCACCGCATGGGATATACACGAAACA
TATCAAGAGAGACTGAAGACCTGCTCAAATATTCCAATTTATAATTACATGTTCAATGAA
AATAATTTGAAATGGGGAGAATTGATGAAAATATATGTGCCGCTGGGCTTTCATCAACCC
CTTCAGAAATTTATATGGTACTACTCGTATTTCATTGTCTCATCAAAGGCACTATTTAAA
GCATTGAATTTCATTTGTCACACAATTCCGGCATCAGTCATGGACATTCTAATGTTATGT
ATTGGTAAAAAAATGATTTATCGCCGAGCATATGCAAAGACGGAGCAAATTCTTATTATA
ATGTCATTCTTTGGATTACGTGAATGGAATGTTAGAAATCGTAATATCCAAGCATTGTTG
GAAAAGACAAAGAATTTTCACTATCAACGTGGCGATTTAGATTTTGACATGCGGAATATA
AATTGGCATGAATTCTTTCGCAATTACATACCTGGAATAAAACGATATCATTTTAAGGAA
AAAGTTGGGAATGTTAAGCAGCTTGCTGTTTATTACAATTGGATGAAACGAGTTCATATG
ATTTTCAAGTATTTGATTTATATCATTTTGACAAAAAAAATTTTAAAGGTTTTACAAGTG
CTCATGAAGAAATTAGTTTTTAAAATGATTGTTTAA

>g4283.t1 Gene=g4283 Length=531
MGKWALKSVLINNSNIIVINVIYIQIETNPLEAFYKGSTILMTGANGYLGKTLIEKLLRC
FDVEKIYLLMRVKNNENVEKRLENLINETIFEQLRERNPAVFRKLIAIEVDYTAHDLNLN
IETLERLHAEVQIVFNIVASVRFNEPLQDAIDINFLGTKKVVNLVLGIEKLKSFVHVSTL
YSNCNRDDIDEKIYDHMLNYHQLIPIAKILKDAKNKKMEEILFDGLPNTYTLTKHFAEKL
VYHQTFFIPSGIFRPAVVVSNYKDLPGYIENVNGPSMIIALTVRGYIHCIFGDSSKRANL
IPVDYTINALIATAWDIHETYQERLKTCSNIPIYNYMFNENNLKWGELMKIYVPLGFHQP
LQKFIWYYSYFIVSSKALFKALNFICHTIPASVMDILMLCIGKKMIYRRAYAKTEQILII
MSFFGLREWNVRNRNIQALLEKTKNFHYQRGDLDFDMRNINWHEFFRNYIPGIKRYHFKE
KVGNVKQLAVYYNWMKRVHMIFKYLIYIILTKKILKVLQVLMKKLVFKMIV

Protein features from InterProScan

Transcript Database ID Name Start End E.value
12 g4283.t1 CDD cd05236 FAR-N_SDR_e 39 348 1.48182E-87
13 g4283.t1 CDD cd09071 FAR_C 385 476 1.06705E-20
6 g4283.t1 Gene3D G3DSA:3.40.50.720 - 22 369 8.1E-62
3 g4283.t1 PANTHER PTHR11011:SF81 FATTY ACYL-COA REDUCTASE 23 490 1.3E-150
4 g4283.t1 PANTHER PTHR11011 MALE STERILITY PROTEIN 2-RELATED 23 490 1.3E-150
1 g4283.t1 Pfam PF07993 Male sterility protein 43 309 1.5E-61
2 g4283.t1 Pfam PF03015 Male sterility protein 386 480 5.0E-22
8 g4283.t1 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 380 -
10 g4283.t1 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 381 401 -
7 g4283.t1 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 402 503 -
11 g4283.t1 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 504 522 -
9 g4283.t1 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 523 531 -
5 g4283.t1 SUPERFAMILY SSF51735 NAD(P)-binding Rossmann-fold domains 33 319 1.64E-28

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. There were no conditions that were differentially expressed