Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Enoyl-CoA delta isomerase 1, mitochondrial.

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 g5490 g5490.t2 TTS g5490.t2 9848057 9848057
chr_2 g5490 g5490.t2 isoform g5490.t2 9848136 9849125
chr_2 g5490 g5490.t2 exon g5490.t2.exon1 9848136 9848599
chr_2 g5490 g5490.t2 cds g5490.t2.CDS1 9848136 9848599
chr_2 g5490 g5490.t2 exon g5490.t2.exon2 9848696 9848813
chr_2 g5490 g5490.t2 cds g5490.t2.CDS2 9848696 9848813
chr_2 g5490 g5490.t2 exon g5490.t2.exon3 9848874 9849125
chr_2 g5490 g5490.t2 cds g5490.t2.CDS3 9848874 9849125
chr_2 g5490 g5490.t2 TSS g5490.t2 9849168 9849168

Sequences

>g5490.t2 Gene=g5490 Length=834
ATGAATTTTTCGCGTTTACTTAAAACTACCTCAGCACTTACATCTCGATGGCTATGCAGT
GGAAGATTTCAATCAACAAGTGCTGCAGCACAAAAGCTAGTTGATGTTAGTGTGGATTCT
AAGACCGGTGTTTCGATTGTTTCGTTGAATCGTAAGCCAGTGAATAGTTTATCCTTGGAA
TTATTTAAAGAATTTTGTGGAGTGATGGATGATTTGGAGAGTGAAAAAGTTCGAGGGATG
ATTTTGAAAAGTTCATGTGATAATGTGTTCTCGAGTGGGCTTGATATAACTGAATTATAC
CCTCATCCAGATGAAGATCGTTTTCATGCGTTTTGGTTGTGGTTTCAAGAAACTTGGATT
AAATTATATGGACACGCTCCAGCTGGAGGATGCGTCTTGGCAATTTCATGCGAGTACAGA
ATAATGCTTCCATACTATAAAATAGGTTTGAATGAAGCACCAGTTGGAATTGTTGCACCT
GATTGGGTTGTTAATTCATTGAAAAGTGTATTAGCATCAAGAAAAGCTGAACAATTATTA
ACCTCAGGAAGACTTCTCGATACTCAGGAAGCATTTGACATTGGTCTTATTGACAAAATT
GTCAATAATGAAGAAGAGGCACTTGCTCGAAGTGAAGAGTTTTTCTCTACATTTGATAAT
GTTCCAAAATTAGCTCGTGCACTGACCAAACAGCAAGTCCGCAAAAATGAAATTTCTAAA
TTGATTAAAAATCGTTCTAATGACGCAAAACTGTTTCTTAATCACATCCTTCGTCCTGAA
ACACAAAAAATCATTGGATCATATTTTAAAAGTCTTAAAGATCGTAAAAAATAA

>g5490.t2 Gene=g5490 Length=277
MNFSRLLKTTSALTSRWLCSGRFQSTSAAAQKLVDVSVDSKTGVSIVSLNRKPVNSLSLE
LFKEFCGVMDDLESEKVRGMILKSSCDNVFSSGLDITELYPHPDEDRFHAFWLWFQETWI
KLYGHAPAGGCVLAISCEYRIMLPYYKIGLNEAPVGIVAPDWVVNSLKSVLASRKAEQLL
TSGRLLDTQEAFDIGLIDKIVNNEEEALARSEEFFSTFDNVPKLARALTKQQVRKNEISK
LIKNRSNDAKLFLNHILRPETQKIIGSYFKSLKDRKK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g5490.t2 CDD cd06558 crotonase-like 36 214 7.10005E-38
6 g5490.t2 Gene3D G3DSA:3.90.226.10 - 31 251 1.4E-41
2 g5490.t2 PANTHER PTHR11941:SF45 ENOYL-COA DELTA ISOMERASE 1, MITOCHONDRIAL 23 276 9.2E-75
3 g5490.t2 PANTHER PTHR11941 ENOYL-COA HYDRATASE-RELATED 23 276 9.2E-75
1 g5490.t2 Pfam PF00378 Enoyl-CoA hydratase/isomerase 41 268 1.0E-32
4 g5490.t2 SUPERFAMILY SSF52096 ClpP/crotonase 36 269 1.08E-37
5 g5490.t2 SignalP_GRAM_POSITIVE SignalP-TM SignalP-TM 1 29 -

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

Data is missing for g5490/g5490.t2; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5490.t2.fa.iupred3.txt does not exist

GO terms from InterProScan

GOID TERM ONTOLOGY
GO:0003824 catalytic activity MF

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