Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Mitochondrial inner membrane protease subunit 2.

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 g10335 g10335.t6 isoform g10335.t6 8936393 8936960
chr_1 g10335 g10335.t6 exon g10335.t6.exon1 8936393 8936960
chr_1 g10335 g10335.t6 cds g10335.t6.CDS1 8936394 8936795
chr_1 g10335 g10335.t6 TSS g10335.t6 NA NA
chr_1 g10335 g10335.t6 TTS g10335.t6 NA NA

Sequences

>g10335.t6 Gene=g10335 Length=568
TTTAAATCCTATTAATCTGGAAAGTGATTACGTATTTTTAAACAAATTCAAAGCAAAAGA
TTTCAAAGTATCAAGGGGAGAAATTGTGTGTTTAATTTCTCCAAAAGATGCACAACAGAG
AATTATTAAAAGGGTGATTGCAAGAGAGGGTGATGTAGTTCATACAATTGGATATAAAGA
AAAATATGTCAAAGTTCCAGCTGGACATTTCTGGATAGAAGGTGACAACGTAAATAACTC
ACTTGATAGTAATACTTTTGGTCCGGTACCACTTGGTTTGCTTACTGCAAAAGCCACACA
CATTGTTTGGCCACTTTCTCGAATAGGATCTTTAAATGTTGATGATGAATCTGTAAGACA
ACCCATTAAATTTGGAAAAAAATCAACGTTAAGCAGCAGTTAGAAACGATTAAGAAATTT
TATTTCTTCCTTAACTCTCCTGCCACATCGTGATAGGAAAAATTTTATTTTTATAAATGA
CTAAATTTTTAATCCTTATAAAATTCTCTTATTAGTAATATGTAAGTAACTGAACAAAAT
GTTGAATTCGAAAGAATAAAATATTTAC

>g10335.t6 Gene=g10335 Length=133
LNPINLESDYVFLNKFKAKDFKVSRGEIVCLISPKDAQQRIIKRVIAREGDVVHTIGYKE
KYVKVPAGHFWIEGDNVNNSLDSNTFGPVPLGLLTAKATHIVWPLSRIGSLNVDDESVRQ
PIKFGKKSTLSSS

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g10335.t6 CDD cd06530 S26_SPase_I 3 98 8.71877E-20
9 g10335.t6 Gene3D G3DSA:2.10.109.10 Umud Fragment 2 124 2.6E-20
3 g10335.t6 PANTHER PTHR46041:SF2 MITOCHONDRIAL INNER MEMBRANE PROTEASE SUBUNIT 2 6 113 1.6E-42
4 g10335.t6 PANTHER PTHR46041 MITOCHONDRIAL INNER MEMBRANE PROTEASE SUBUNIT 2 6 113 1.6E-42
6 g10335.t6 PRINTS PR00727 Bacterial leader peptidase 1 (S26A) family signature 41 53 2.5E-8
5 g10335.t6 PRINTS PR00727 Bacterial leader peptidase 1 (S26A) family signature 65 84 2.5E-8
1 g10335.t6 Pfam PF10502 Signal peptidase, peptidase S26 6 55 2.2E-8
2 g10335.t6 Pfam PF10502 Signal peptidase, peptidase S26 60 103 5.1E-8
8 g10335.t6 ProSitePatterns PS00761 Signal peptidases I signature 3. 70 83 -
7 g10335.t6 SUPERFAMILY SSF51306 LexA/Signal peptidase 7 111 2.98E-31

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:0016020 membrane CC
GO:0006627 protein processing involved in protein targeting to mitochondrion BP
GO:0004252 serine-type endopeptidase activity MF
GO:0042720 mitochondrial inner membrane peptidase complex CC
GO:0008236 serine-type peptidase activity MF
GO:0006465 signal peptide processing BP
GO:0006508 proteolysis BP
GO:0016021 integral component of membrane CC

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