Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Lipoyl synthase, 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 g4108 g4108.t2 TSS g4108.t2 30664816 30664816
chr_3 g4108 g4108.t2 isoform g4108.t2 30664872 30665398
chr_3 g4108 g4108.t2 exon g4108.t2.exon1 30664872 30664919
chr_3 g4108 g4108.t2 exon g4108.t2.exon2 30664994 30665398
chr_3 g4108 g4108.t2 cds g4108.t2.CDS1 30665015 30665398
chr_3 g4108 g4108.t2 TTS g4108.t2 30666225 30666225

Sequences

>g4108.t2 Gene=g4108 Length=453
AAAAAATATCATTTATTGTTATTTAAAAACACTGTCAATTATTCATTGACAAATTTGCAA
GCACAAAAAATGTTACGAAATTCAATAAAAATCAAAACACCAACAAACATTCAAAAGTTT
CGCTATAAGCATTCATCAGCTGCATTAGAGAAAATTCGTGAGAAGTTAGAGAATGGACCA
AATTTTCAAGATTTTGTTCAAAATCCAAATCATAGTCGTGAAGAAATGGCAAAAGAATTT
GAAGGAAGGTTGAAGAAAGAAAAAGGCGAAAAAGAGAGATTGAGATTGCCACCATGGTTG
AAAACACAAATTCCAATAGGAAAGAATTATGATAAAATCAAGAATCAGCTACGTGAACTT
AAGCTATCGACAGTGTGTGAAGAGGCAAGATGTCCAAATATCGGTGAATGCTGGGGTGGT
GGAAAGCATGGAACACAAACAGCTACAATTATG

>g4108.t2 Gene=g4108 Length=128
MLRNSIKIKTPTNIQKFRYKHSSAALEKIREKLENGPNFQDFVQNPNHSREEMAKEFEGR
LKKEKGEKERLRLPPWLKTQIPIGKNYDKIKNQLRELKLSTVCEEARCPNIGECWGGGKH
GTQTATIM

Protein features from InterProScan

Transcript Database ID Name Start End E.value
4 g4108.t2 MobiDBLite mobidb-lite consensus disorder prediction 37 65 -
5 g4108.t2 MobiDBLite mobidb-lite consensus disorder prediction 48 65 -
2 g4108.t2 PANTHER PTHR10949:SF0 LIPOYL SYNTHASE, MITOCHONDRIAL 20 128 7.9E-33
3 g4108.t2 PANTHER PTHR10949 LIPOYL SYNTHASE 20 128 7.9E-33
1 g4108.t2 Pfam PF16881 N-terminal domain of lipoyl synthase of Radical_SAM family 18 108 6.4E-38

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:0051539 4 iron, 4 sulfur cluster binding MF
GO:0009107 lipoate biosynthetic process BP
GO:0016992 lipoate synthase 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.

Raw TPM values