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.t12 TSS g3472.t12 25772089 25772089
chr_3 g3472 g3472.t12 isoform g3472.t12 25772160 25773395
chr_3 g3472 g3472.t12 exon g3472.t12.exon1 25772160 25772165
chr_3 g3472 g3472.t12 exon g3472.t12.exon2 25772226 25772260
chr_3 g3472 g3472.t12 cds g3472.t12.CDS1 25772239 25772260
chr_3 g3472 g3472.t12 exon g3472.t12.exon3 25772417 25772747
chr_3 g3472 g3472.t12 cds g3472.t12.CDS2 25772417 25772747
chr_3 g3472 g3472.t12 exon g3472.t12.exon4 25772800 25773016
chr_3 g3472 g3472.t12 cds g3472.t12.CDS3 25772800 25773016
chr_3 g3472 g3472.t12 exon g3472.t12.exon5 25773075 25773395
chr_3 g3472 g3472.t12 cds g3472.t12.CDS4 25773075 25773395
chr_3 g3472 g3472.t12 TTS g3472.t12 25773546 25773546

Sequences

>g3472.t12 Gene=g3472 Length=910
ATGGAGATTGAAATTCTTGATGCACGAAATTCAAAAGGTGATTATAACAAAATGTAATGT
TCAATCCAGCACAACGATAAAAGATTTGAAATCCAGTGTATATGCGGCAAATAAAAAATT
AAATGTTCATCGTCAATCATTTAAGCTGGAAGTAAAAGGAAAAACACTTAAGGATAGTGA
CACAATTGAATCATTGAACTTAAGAAATGGTAGTAAATTGTATGTTAAAGATCTTGGTCC
GCAAATTGGTTGGTCAACTGTTTTCCTTTGCGAATATGCTGGTCCACTTGTTGTTTATTT
ATGGGTTTATACTCGTCCTTGGTTGTTTTATGGTGACACATCGTCATCAGCTGAAATCAG
TCAAACAGCACATATTGCTGCTGCATGCTACACATTGCATTATGCTAAACGATTACTTGA
AACAATTTTCGTTCATCGCTTTTCACATGCGACAATGCCTATGAGAAATTTGTTCAAAAA
CTGCATCTACTATTGGGGATTTACTGCTTACGTTGCCTATCACGTTAATCATCCTCTTTT
TACATCACCATCTACTGCTCAAGTTTATGCTAGTCTTGCCGCATTCTTGTTATGTGAACT
TGGTAACTTTTCAATACATATCAATTTGAGAAATTTAAGACCACCAGGAACATCTGTAAG
AAAAATTCCAATGTCTGATTCAAATCCGCTAACTGCTCTCTTTAACTTCGTTTCGTGTCC
AAATTATACTTACGAGTTCGGAGCTTGGCTTTCATTTTCTATCATGACTCAATGCTTGCC
TGCTTTCCTTTTTGCTGCTGCTGGAATGTATCAAATGACAATGTGGGCTATCGGAAAACA
TAAGAACTACAAAAAAGAATTCAAAGAATATCCAAAGCAAAGAAAAGCTATTATTCCATT
TTTATTGTAA

>g3472.t12 Gene=g3472 Length=296
MHEIQKVIITKCNVQSSTTIKDLKSSVYAANKKLNVHRQSFKLEVKGKTLKDSDTIESLN
LRNGSKLYVKDLGPQIGWSTVFLCEYAGPLVVYLWVYTRPWLFYGDTSSSAEISQTAHIA
AACYTLHYAKRLLETIFVHRFSHATMPMRNLFKNCIYYWGFTAYVAYHVNHPLFTSPSTA
QVYASLAAFLLCELGNFSIHINLRNLRPPGTSVRKIPMSDSNPLTALFNFVSCPNYTYEF
GAWLSFSIMTQCLPAFLFAAAGMYQMTMWAIGKHKNYKKEFKEYPKQRKAIIPFLL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
18 g3472.t12 CDD cd01801 Ubl_TECR_like 6 72 1.98638E-19
6 g3472.t12 Gene3D G3DSA:3.10.20.90 - 2 72 7.8E-19
3 g3472.t12 PANTHER PTHR10556:SF28 SC2 6 296 2.9E-109
4 g3472.t12 PANTHER PTHR10556 3-OXO-5-ALPHA-STEROID 4-DEHYDROGENASE 6 296 2.9E-109
2 g3472.t12 Pfam PF00240 Ubiquitin family 13 69 3.7E-7
1 g3472.t12 Pfam PF02544 3-oxo-5-alpha-steroid 4-dehydrogenase 145 296 3.9E-30
11 g3472.t12 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 75 -
15 g3472.t12 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 76 96 -
7 g3472.t12 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 97 155 -
16 g3472.t12 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 156 174 -
12 g3472.t12 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 175 179 -
14 g3472.t12 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 180 203 -
9 g3472.t12 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 204 223 -
17 g3472.t12 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 224 249 -
10 g3472.t12 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 250 254 -
13 g3472.t12 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 255 272 -
8 g3472.t12 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 273 296 -
21 g3472.t12 ProSiteProfiles PS50053 Ubiquitin domain profile. 13 69 11.072
22 g3472.t12 ProSiteProfiles PS50244 Steroid 5-alpha reductase C-terminal domain profile. 185 271 22.185
5 g3472.t12 SUPERFAMILY SSF54236 Ubiquitin-like 11 69 1.91E-8
20 g3472.t12 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 155 174 -
19 g3472.t12 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 240 262 -

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:0005515 protein binding MF
GO:0006629 lipid metabolic process BP

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