Gene loci information

Transcript annotation

  • This transcript has been annotated as Trifunctional enzyme subunit beta, 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_3 g2985 g2985.t12 TTS g2985.t12 21741991 21741991
chr_3 g2985 g2985.t12 isoform g2985.t12 21742714 21743844
chr_3 g2985 g2985.t12 exon g2985.t12.exon1 21742714 21743205
chr_3 g2985 g2985.t12 cds g2985.t12.CDS1 21742715 21743205
chr_3 g2985 g2985.t12 exon g2985.t12.exon2 21743261 21743483
chr_3 g2985 g2985.t12 cds g2985.t12.CDS2 21743261 21743483
chr_3 g2985 g2985.t12 exon g2985.t12.exon3 21743545 21743624
chr_3 g2985 g2985.t12 cds g2985.t12.CDS3 21743545 21743624
chr_3 g2985 g2985.t12 exon g2985.t12.exon4 21743796 21743844
chr_3 g2985 g2985.t12 cds g2985.t12.CDS4 21743796 21743844
chr_3 g2985 g2985.t12 TSS g2985.t12 21743936 21743936

Sequences

>g2985.t12 Gene=g2985 Length=844
ATGTCTTTACTGCGTGTACCAATTACTTTAGCTGTAAATCAGCAACAAGCTATTCGCACT
TTAAGCACATCATCATATTTATCTCAAAAGAAACAATTTAAATCAAAATCGCCTCAAAAT
ATTGTTTTGGTTGATGGTGTTCGTACCCCTTTTCTTGTTTCTGGAACTGATTATTCAAAA
ATGATGCCTCATAATCTTGCAAGACACTCTCTTCTTAGTTTGTTACGCAAAACAAAAGTG
GATAAGGAATTGATTGACTATATTGTTTATGGAACTGTAATTCAAGAAGTTAAAACATCG
AATATTGCACGTGAAGCAGCATTATCAGCAGGATTTAGCAATTTTACTCCAGCACATACT
GTTACAATGGCATGTATAAGCAGCAATCAAGCAATCACAACTGCTATGGGTTTAATTGCT
ACTGGAACATATGAATCTATTGTTTGTGGTGGTGTAGAATTTATGAGTGACGTACCTATT
CGTCATAGTAGAAAAATGCGATCATTAATGTTAAAAGCCAACAAAGCTAAAACACTTGGT
CAACGTCTTTCGTTACTATCAACATTCCGACCAAGCTTTTTGATTCCTGAACTCCCAGCT
GTAGCTGAATTTAGCAGTGGTGAAACAATGGGACATTCTGCTGATCGTTTGGCATCAGCA
TTTTCTGTTTCTAGAAAAGAACAAGATGATTATGCACTTCGTTCTCATACATTAGCTAAG
CAGGCTCAAGAGAAAGGATATTTTACGGATTTAGTTCCATTCAAAGTAGATGGTGTAGAA
AAAACAATCAACGTGGACAATGGAATTCGTGTTTCCACACCCGAAGCTTTAGCAAAATTG
AAGC

>g2985.t12 Gene=g2985 Length=281
MSLLRVPITLAVNQQQAIRTLSTSSYLSQKKQFKSKSPQNIVLVDGVRTPFLVSGTDYSK
MMPHNLARHSLLSLLRKTKVDKELIDYIVYGTVIQEVKTSNIAREAALSAGFSNFTPAHT
VTMACISSNQAITTAMGLIATGTYESIVCGGVEFMSDVPIRHSRKMRSLMLKANKAKTLG
QRLSLLSTFRPSFLIPELPAVAEFSSGETMGHSADRLASAFSVSRKEQDDYALRSHTLAK
QAQEKGYFTDLVPFKVDGVEKTINVDNGIRVSTPEALAKLK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g2985.t12 CDD cd00751 thiolase 42 281 1.09717E-78
6 g2985.t12 Gene3D G3DSA:3.40.47.10 - 31 281 3.6E-56
2 g2985.t12 PANTHER PTHR18919:SF147 TRIFUNCTIONAL ENZYME SUBUNIT BETA, MITOCHONDRIAL 31 281 4.1E-112
3 g2985.t12 PANTHER PTHR18919 ACETYL-COA C-ACYLTRANSFERASE 31 281 4.1E-112
1 g2985.t12 Pfam PF00108 Thiolase, N-terminal domain 41 281 1.2E-60
5 g2985.t12 ProSitePatterns PS00098 Thiolases acyl-enzyme intermediate signature. 121 139 -
4 g2985.t12 SUPERFAMILY SSF53901 Thiolase-like 37 281 5.26E-41

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:0016746 acyltransferase activity MF
GO:0016747 acyltransferase activity, transferring groups other than amino-acyl groups 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.

Raw TPM values