Gene loci information

Transcript annotation

  • This transcript has been annotated as Methylglutaconyl-CoA hydratase, 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_1 g13132 g13132.t1 TTS g13132.t1 28119004 28119004
chr_1 g13132 g13132.t1 isoform g13132.t1 28119112 28120127
chr_1 g13132 g13132.t1 exon g13132.t1.exon1 28119112 28119273
chr_1 g13132 g13132.t1 cds g13132.t1.CDS1 28119112 28119273
chr_1 g13132 g13132.t1 exon g13132.t1.exon2 28119332 28119657
chr_1 g13132 g13132.t1 cds g13132.t1.CDS2 28119332 28119657
chr_1 g13132 g13132.t1 exon g13132.t1.exon3 28119713 28120127
chr_1 g13132 g13132.t1 cds g13132.t1.CDS3 28119713 28120127
chr_1 g13132 g13132.t1 TSS g13132.t1 28120252 28120252

Sequences

>g13132.t1 Gene=g13132 Length=903
ATGTTGTCATTCCAAAAATCCATCAATTTTGCACTCAAATCAACACAAATTCGTAAAAGC
TGCTTATCACTTGCTAGTCGCAATTTTTGTGCAAAAATTGATAGTGAAGAAATTCGCTTG
AGTTATTTGACAGATGAACGTCAAGGCATTGCTGTTATCGAATTGAATCGTGAAAATGGA
AAGAATTCTTTTAACCGTTCAATGGCATCAAAATTACATCATGCTGTGGATGTTTTGACA
ACTGATAAAAATGTTAGAGCTGTTATAATTAGAAGTTTAGTCAAAGGAGTTTTTTGTGCT
GGAGCTGACTTGAAAGAAAGAAAAACACTAACACCTGTTGAAGTTCATCGTTTTGTCAAT
TCATTGAGATCTTTGGTTGTGAAAATGGAAAATTTACCAATGCCAACAATTGCTGCAATT
GATGGAGTTGCATTAGGTGGTGGACTTGAAATGGGATTATCATGTGATTTAAGAGTTGCA
GCTGATAAAGCTAAAATGGGTTTAGTTGAAACAAGATTAGCAATAATTCCAGGTGCAGGT
GGCACACAAAGACTTCCTCGACTCATAAATGTTGCACTGGCTAAAGAGCTCATTTTCACA
GCAAGAGTTTTTAATGGTGATGAAGCTCTTAAAATGGGAGTTGTTAATCATTCAGTGCCA
CAAAATGAAAATGGTGATGCTGCTTATCAGAGAGCATTGAAATTAGCTGAAGAAATTTTA
CCAAATGGTCCTGTTGGAGTTAGAATGGCAAAAAGAGCAATCAACAAAGGAATTCAAGTT
GACTTAAATACTGGTTATTGCATTGAAGAAGATTGTTATAGTCAAATTATTCCAACCAAA
GATCGTTTAGAAGGATTAGCTGCATTTGCTGAAAAGAGAAAGCCAAATTATACTGGAGAA
TAA

>g13132.t1 Gene=g13132 Length=300
MLSFQKSINFALKSTQIRKSCLSLASRNFCAKIDSEEIRLSYLTDERQGIAVIELNRENG
KNSFNRSMASKLHHAVDVLTTDKNVRAVIIRSLVKGVFCAGADLKERKTLTPVEVHRFVN
SLRSLVVKMENLPMPTIAAIDGVALGGGLEMGLSCDLRVAADKAKMGLVETRLAIIPGAG
GTQRLPRLINVALAKELIFTARVFNGDEALKMGVVNHSVPQNENGDAAYQRALKLAEEIL
PNGPVGVRMAKRAINKGIQVDLNTGYCIEEDCYSQIIPTKDRLEGLAAFAEKRKPNYTGE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g13132.t1 CDD cd06558 crotonase-like 43 239 3.92939E-69
7 g13132.t1 Gene3D G3DSA:3.90.226.10 - 29 240 2.6E-74
6 g13132.t1 Gene3D G3DSA:1.10.12.10 - 241 300 1.1E-27
2 g13132.t1 PANTHER PTHR11941:SF12 METHYLGLUTACONYL-COA HYDRATASE, MITOCHONDRIAL 22 300 6.2E-122
3 g13132.t1 PANTHER PTHR11941 ENOYL-COA HYDRATASE-RELATED 22 300 6.2E-122
1 g13132.t1 Pfam PF00378 Enoyl-CoA hydratase/isomerase 46 299 5.9E-60
5 g13132.t1 ProSitePatterns PS00166 Enoyl-CoA hydratase/isomerase signature. 137 157 -
4 g13132.t1 SUPERFAMILY SSF52096 ClpP/crotonase 43 299 2.06E-77

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:0003824 catalytic activity MF

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.

Raw TPM values