Gene loci information

Transcript annotation

  • This transcript has been annotated as Probable very-long-chain enoyl-CoA reductase art-1.

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.t9 TSS g3472.t9 25772089 25772089
chr_3 g3472 g3472.t9 isoform g3472.t9 25772160 25773395
chr_3 g3472 g3472.t9 exon g3472.t9.exon1 25772160 25772747
chr_3 g3472 g3472.t9 exon g3472.t9.exon2 25772800 25773016
chr_3 g3472 g3472.t9 cds g3472.t9.CDS1 25772882 25773016
chr_3 g3472 g3472.t9 exon g3472.t9.exon3 25773075 25773395
chr_3 g3472 g3472.t9 cds g3472.t9.CDS2 25773075 25773395
chr_3 g3472 g3472.t9 TTS g3472.t9 25773546 25773546

Sequences

>g3472.t9 Gene=g3472 Length=1126
ATGGAGGTAAACTTGTTAATCAAATACTGTTTAAAACACTTATCTTATAATTGTTTCTTA
ATTTAGATTGAAATTCTTGATGCACGAAATTCAAAAGGTGAGTAAATTTAAAATCAAAGT
TCTTACTCTTATATTTTACACGTAAAATTGACTTTTGGCCGGAATATGGAATACATTTTT
ATATTTGCCTATTGAATAATTTTCTTCTTTTCTTCTTCTTTACTTCTTTTTTTTTATCTG
TCTCTTCGCTAAAACAGTTATAACAAAATGTAATGTTCAATCCAGCACAACGATAAAAGA
TTTGAAATCCAGTGTATATGCGGCAAATAAAAAATTAAATGTTCATCGTCAATCATTTAA
GCTGGAAGTAAAAGGAAAAACACTTAAGGATAGTGACACAATTGAATCATTGAACTTAAG
AAATGGTAGTAAATTGTATGTTAAAGATCTTGGTCCGCAAATTGGTTGGTCAACTGTTTT
CCTTTGCGAATATGCTGGTCCACTTGTTGTTTATTTATGGGTTTATACTCGTCCTTGGTT
GTTTTATGGTGACACATCGTCATCAGCTGAAATCAGTCAAACAGCACATATTGCTGCTGC
ATGCTACACATTGCATTATGCTAAACGATTACTTGAAACAATTTTCGTTCATCGCTTTTC
ACATGCGACAATGCCTATGAGAAATTTGTTCAAAAACTGCATCTACTATTGGGGATTTAC
TGCTTACGTTGCCTATCACGTTAATCATCCTCTTTTTACATCACCATCTACTGCTCAAGT
TTATGCTAGTCTTGCCGCATTCTTGTTATGTGAACTTGGTAACTTTTCAATACATATCAA
TTTGAGAAATTTAAGACCACCAGGAACATCTGTAAGAAAAATTCCAATGTCTGATTCAAA
TCCGCTAACTGCTCTCTTTAACTTCGTTTCGTGTCCAAATTATACTTACGAGTTCGGAGC
TTGGCTTTCATTTTCTATCATGACTCAATGCTTGCCTGCTTTCCTTTTTGCTGCTGCTGG
AATGTATCAAATGACAATGTGGGCTATCGGAAAACATAAGAACTACAAAAAAGAATTCAA
AGAATATCCAAAGCAAAGAAAAGCTATTATTCCATTTTTATTGTAA

>g3472.t9 Gene=g3472 Length=151
MPMRNLFKNCIYYWGFTAYVAYHVNHPLFTSPSTAQVYASLAAFLLCELGNFSIHINLRN
LRPPGTSVRKIPMSDSNPLTALFNFVSCPNYTYEFGAWLSFSIMTQCLPAFLFAAAGMYQ
MTMWAIGKHKNYKKEFKEYPKQRKAIIPFLL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g3472.t9 PANTHER PTHR10556:SF31 VERY-LONG-CHAIN ENOYL-COA REDUCTASE 1 151 1.2E-61
3 g3472.t9 PANTHER PTHR10556 3-OXO-5-ALPHA-STEROID 4-DEHYDROGENASE 1 151 1.2E-61
1 g3472.t9 Pfam PF02544 3-oxo-5-alpha-steroid 4-dehydrogenase 1 151 2.3E-30
7 g3472.t9 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 11 -
12 g3472.t9 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 12 29 -
11 g3472.t9 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 30 34 -
13 g3472.t9 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 35 58 -
9 g3472.t9 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 59 78 -
14 g3472.t9 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 79 104 -
10 g3472.t9 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 105 109 -
15 g3472.t9 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 110 127 -
8 g3472.t9 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 128 151 -
6 g3472.t9 ProSiteProfiles PS50244 Steroid 5-alpha reductase C-terminal domain profile. 40 126 22.185
5 g3472.t9 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 12 29 -
4 g3472.t9 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 95 117 -

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.

Raw TPM values