Gene loci information

Transcript annotation

  • This transcript has been annotated as Very-long-chain enoyl-CoA reductase.

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 g3472 g3472.t19 TSS g3472.t19 25772089 25772089
chr_3 g3472 g3472.t19 isoform g3472.t19 25772160 25773395
chr_3 g3472 g3472.t19 exon g3472.t19.exon1 25772160 25772256
chr_3 g3472 g3472.t19 exon g3472.t19.exon2 25772417 25772751
chr_3 g3472 g3472.t19 cds g3472.t19.CDS1 25772705 25772751
chr_3 g3472 g3472.t19 exon g3472.t19.exon3 25772800 25773016
chr_3 g3472 g3472.t19 cds g3472.t19.CDS2 25772800 25773016
chr_3 g3472 g3472.t19 exon g3472.t19.exon4 25773075 25773395
chr_3 g3472 g3472.t19 cds g3472.t19.CDS3 25773075 25773395
chr_3 g3472 g3472.t19 TTS g3472.t19 25773546 25773546

Sequences

>g3472.t19 Gene=g3472 Length=970
ATGGAGGTAAACTTGTTAATCAAATACTGTTTAAAACACTTATCTTATAATTGTTTCTTA
ATTTAGATTGAAATTCTTGATGCACGAAATTCAAAAGTTATAACAAAATGTAATGTTCAA
TCCAGCACAACGATAAAAGATTTGAAATCCAGTGTATATGCGGCAAATAAAAAATTAAAT
GTTCATCGTCAATCATTTAAGCTGGAAGTAAAAGGAAAAACACTTAAGGATAGTGACACA
ATTGAATCATTGAACTTAAGAAATGGTAGTAAATTGTATGTTAAAGATCTTGGTCCGCAA
ATTGGTTGGTCAACTGTTTTCCTTTGCGAATATGCTGGTCCACTTGTTGTTTATTTATGG
GTTTATACTCGTCCTTGGTTGTTTTATGGTGACACATCGTCATCAGCTGAAATCAGTCAA
ACAGCACAGTAATATTGCTGCTGCATGCTACACATTGCATTATGCTAAACGATTACTTGA
AACAATTTTCGTTCATCGCTTTTCACATGCGACAATGCCTATGAGAAATTTGTTCAAAAA
CTGCATCTACTATTGGGGATTTACTGCTTACGTTGCCTATCACGTTAATCATCCTCTTTT
TACATCACCATCTACTGCTCAAGTTTATGCTAGTCTTGCCGCATTCTTGTTATGTGAACT
TGGTAACTTTTCAATACATATCAATTTGAGAAATTTAAGACCACCAGGAACATCTGTAAG
AAAAATTCCAATGTCTGATTCAAATCCGCTAACTGCTCTCTTTAACTTCGTTTCGTGTCC
AAATTATACTTACGAGTTCGGAGCTTGGCTTTCATTTTCTATCATGACTCAATGCTTGCC
TGCTTTCCTTTTTGCTGCTGCTGGAATGTATCAAATGACAATGTGGGCTATCGGAAAACA
TAAGAACTACAAAAAAGAATTCAAAGAATATCCAAAGCAAAGAAAAGCTATTATTCCATT
TTTATTGTAA

>g3472.t19 Gene=g3472 Length=194
MVTHRHQLKSVKQHSNIAAACYTLHYAKRLLETIFVHRFSHATMPMRNLFKNCIYYWGFT
AYVAYHVNHPLFTSPSTAQVYASLAAFLLCELGNFSIHINLRNLRPPGTSVRKIPMSDSN
PLTALFNFVSCPNYTYEFGAWLSFSIMTQCLPAFLFAAAGMYQMTMWAIGKHKNYKKEFK
EYPKQRKAIIPFLL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g3472.t19 PANTHER PTHR10556:SF28 SC2 6 194 5.7E-77
3 g3472.t19 PANTHER PTHR10556 3-OXO-5-ALPHA-STEROID 4-DEHYDROGENASE 6 194 5.7E-77
1 g3472.t19 Pfam PF02544 3-oxo-5-alpha-steroid 4-dehydrogenase 43 194 1.1E-30
9 g3472.t19 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 53 -
12 g3472.t19 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 54 72 -
11 g3472.t19 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 73 77 -
13 g3472.t19 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 78 101 -
7 g3472.t19 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 102 121 -
15 g3472.t19 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 122 147 -
10 g3472.t19 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 148 152 -
14 g3472.t19 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 153 170 -
8 g3472.t19 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 171 194 -
6 g3472.t19 ProSiteProfiles PS50244 Steroid 5-alpha reductase C-terminal domain profile. 83 169 22.185
5 g3472.t19 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 53 72 -
4 g3472.t19 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 138 160 -

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:0016627 oxidoreductase activity, acting on the CH-CH group of donors MF
GO:0006629 lipid metabolic process BP

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. There were no conditions that were differentially expressed