Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Trifunctional enzyme subunit alpha, 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 g9117 g9117.t70 TTS g9117.t70 220513 220513
chr_1 g9117 g9117.t70 isoform g9117.t70 221259 222072
chr_1 g9117 g9117.t70 exon g9117.t70.exon1 221259 221272
chr_1 g9117 g9117.t70 cds g9117.t70.CDS1 221259 221272
chr_1 g9117 g9117.t70 exon g9117.t70.exon2 221337 221401
chr_1 g9117 g9117.t70 cds g9117.t70.CDS2 221337 221401
chr_1 g9117 g9117.t70 exon g9117.t70.exon3 221472 222072
chr_1 g9117 g9117.t70 cds g9117.t70.CDS3 221472 221938
chr_1 g9117 g9117.t70 TSS g9117.t70 222169 222169

Sequences

>g9117.t70 Gene=g9117 Length=680
ATGGCTAGTTTGCGAGTTAAAGGATTTTTATCTACTATTACACGAGTGAAGAGAATTGGT
CTGCAGAATTGTAAGTGAAATTTGCATTAAATAGAAATACTTTGAAATGAACTTTGGACT
TTAGAAATATTTCGATGATAATTCCACGATTATCTAACATACAATTACTGATTTATCTTT
GCCTTCACATTTCAGCTTCTATCAACCAATTTAATCGTAATTGTTCATCGACGTCGGCAA
AAAATATCAAAACGTCCATTGTTGATAATGTACTTGTAATCAAATTAGATCAACCAGGCT
CAAAAGTTAATACTTTAGGAAAACAAATTACTAATGAATTTGAAGCAGTTCTTAAAGAGT
TTGAGACAAATCCAGCTGTAAAGTCTGCTGTTCTCATATCTGGCAAGCCATCTTGTTTCG
TAGCTGGCGCAGATATAACAATGTTAGAAGAATGTAAAACAGAAAATGATGCCAGGAAGA
TCAGTCATGAAGCTCAAATTATGTTTGATCGAATGGAAAAGTCAAATAAGCCCATTGTCT
GTGCAATTCATGGAACATGTTTTGGAGGCGGATTAGAATTGGCGCTAGCATGCCATTATA
GAATCGCAACAAAAAGTAAAAAAACGGGTTTAGCTCTTCCTGAAGTTATGCTTGGCTTGT
TACCTGGTGCTGGAGGAACG

>g9117.t70 Gene=g9117 Length=182
MIIPRLSNIQLLIYLCLHISASINQFNRNCSSTSAKNIKTSIVDNVLVIKLDQPGSKVNT
LGKQITNEFEAVLKEFETNPAVKSAVLISGKPSCFVAGADITMLEECKTENDARKISHEA
QIMFDRMEKSNKPIVCAIHGTCFGGGLELALACHYRIATKSKKTGLALPEVMLGLLPGAG
GT

Protein features from InterProScan

Transcript Database ID Name Start End E.value
11 g9117.t70 CDD cd06558 crotonase-like 38 182 2.01524E-44
5 g9117.t70 Gene3D G3DSA:3.90.226.10 - 33 182 8.9E-51
2 g9117.t70 PANTHER PTHR43612 TRIFUNCTIONAL ENZYME SUBUNIT ALPHA 26 182 1.9E-52
1 g9117.t70 Pfam PF00378 Enoyl-CoA hydratase/isomerase 44 182 3.5E-28
7 g9117.t70 Phobius SIGNAL_PEPTIDE Signal peptide region 1 21 -
8 g9117.t70 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 8 -
9 g9117.t70 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 9 17 -
10 g9117.t70 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 18 21 -
6 g9117.t70 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 22 182 -
3 g9117.t70 SUPERFAMILY SSF52096 ClpP/crotonase 37 182 2.78E-39
4 g9117.t70 SignalP_EUK SignalP-noTM SignalP-noTM 1 21 -

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

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