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 g5494 g5494.t10 TTS g5494.t10 9853148 9853148
chr_2 g5494 g5494.t10 isoform g5494.t10 9853168 9854164
chr_2 g5494 g5494.t10 exon g5494.t10.exon1 9853168 9853508
chr_2 g5494 g5494.t10 cds g5494.t10.CDS1 9853168 9853508
chr_2 g5494 g5494.t10 exon g5494.t10.exon2 9853692 9853839
chr_2 g5494 g5494.t10 cds g5494.t10.CDS2 9853692 9853839
chr_2 g5494 g5494.t10 exon g5494.t10.exon3 9853901 9854164
chr_2 g5494 g5494.t10 cds g5494.t10.CDS3 9853901 9854164
chr_2 g5494 g5494.t10 TSS g5494.t10 9854274 9854274

Sequences

>g5494.t10 Gene=g5494 Length=753
ATGAATTCAACGTGTTTACAAAAGACAACAAGAATATTAAATAAAAATGTATTTAAATGT
TTCTTAAACAGTCATATTCGAAATCAATCAAGTGCAACCAATCAGTCACTGATCCTCACT
GATGTAAATGATAAAACTGGCTTTGCAACAGTTGCTTTTAATCGTCCTCCAATGAGTAAT
TTTACGCTTGAACTTTTGCAAGACTTTTCAAAATCACTGGATGAAGTGGAGAGCAAGAAT
TACAAAGGAATGATTTTGACAAGTACATCACCAACAGTGTTTTCTGCTGGCCTTGATCTG
AAAGAATTATTGAATCCAGAACCAGCAAGATTAAAAGCATTACGTACAGCATACATTGAT
TGCTGCATAAAATTGTACAGTTCAATGTATCCAACTGTTGCTGCAATAAATGTTCATGCT
ACTCGTAACATAATATCTTCACGTGATGCTGAAATGGCTCTAACACTGGGATCAGTGTTT
ACCACTGACGAAGCTCTGAAAATTGGACTCATTGATGAAGTCGCTGAAAATAAAGAAGAT
GCACTTGCTAAAAGTGAAAAATTTCTCAGTTTATTCAAAAAGATTCCAAAAAGGGCTCGT
GGAATCACTAAGCAGTTCTTTAGAAAAAAAGTTATTGATTTAATGACTAATAATAGAGAA
AAAGATGTAGAAGCTTTTGTTAGTTATGTTATGAACCCAGCAAGCCAAAAATCTTTTCAA
GCATTTTTAGATGAAGCAAAAAATAAAAAGTAG

>g5494.t10 Gene=g5494 Length=250
MNSTCLQKTTRILNKNVFKCFLNSHIRNQSSATNQSLILTDVNDKTGFATVAFNRPPMSN
FTLELLQDFSKSLDEVESKNYKGMILTSTSPTVFSAGLDLKELLNPEPARLKALRTAYID
CCIKLYSSMYPTVAAINVHATRNIISSRDAEMALTLGSVFTTDEALKIGLIDEVAENKED
ALAKSEKFLSLFKKIPKRARGITKQFFRKKVIDLMTNNREKDVEAFVSYVMNPASQKSFQ
AFLDEAKNKK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g5494.t10 CDD cd06558 crotonase-like 38 189 0e+00
9 g5494.t10 Gene3D G3DSA:3.90.226.10 - 35 140 0e+00
8 g5494.t10 Gene3D G3DSA:3.90.226.10 - 141 250 0e+00
3 g5494.t10 PANTHER PTHR11941:SF45 ENOYL-COA DELTA ISOMERASE 1, MITOCHONDRIAL 27 140 0e+00
5 g5494.t10 PANTHER PTHR11941 ENOYL-COA HYDRATASE-RELATED 27 140 0e+00
4 g5494.t10 PANTHER PTHR11941:SF45 ENOYL-COA DELTA ISOMERASE 1, MITOCHONDRIAL 142 250 0e+00
6 g5494.t10 PANTHER PTHR11941 ENOYL-COA HYDRATASE-RELATED 142 250 0e+00
1 g5494.t10 Pfam PF00378 Enoyl-CoA hydratase/isomerase 45 140 0e+00
2 g5494.t10 Pfam PF00378 Enoyl-CoA hydratase/isomerase 142 247 7e-07
7 g5494.t10 SUPERFAMILY SSF52096 ClpP/crotonase 36 244 0e+00

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

Data is missing for g5494/g5494.t10; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5494.t10.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