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.t2 isoform g10335.t2 8935520 8936795
chr_1 g10335 g10335.t2 exon g10335.t2.exon1 8935520 8935580
chr_1 g10335 g10335.t2 exon g10335.t2.exon2 8935766 8935878
chr_1 g10335 g10335.t2 exon g10335.t2.exon3 8936122 8936223
chr_1 g10335 g10335.t2 cds g10335.t2.CDS1 8936136 8936223
chr_1 g10335 g10335.t2 exon g10335.t2.exon4 8936374 8936795
chr_1 g10335 g10335.t2 cds g10335.t2.CDS2 8936374 8936795
chr_1 g10335 g10335.t2 TSS g10335.t2 NA NA
chr_1 g10335 g10335.t2 TTS g10335.t2 NA NA

Sequences

>g10335.t2 Gene=g10335 Length=698
AGAACATCACTCTCAGCCGAGAGAGCCAACTCAGCAACAAACAAAAATGACAGAAAAACA
AGTCTAATTCATTCGAATGATGATACTTTTATTGTGCAACATTCGTTTTTTCGTGGACAC
CTTAAAATAATTCAAAATTATATAAAATAAATTACACGACCATTTTTATTTCGGATAGAA
AGGTCAGAATGCGAAGATTCCTCAAAAATTTAGTGTTCGGACTTGCAGCTGGCGTAACTT
ATATAGATTTAATAGGGTACGTCGCGAGAGTAGAAGGCCAAAGTATGCAGCCAACTTTAA
ATCCTATTAATCTGGAAAGTGATTACGTATTTTTAAACAAATTCAAAGCAAAAGATTTCA
AAGTATCAAGGGGAGAAATTGTGTGTTTAATTTCTCCAAAAGATGCACAACAGAGAATTA
TTAAAAGGGTGATTGCAAGAGAGGGTGATGTAGTTCATACAATTGGATATAAAGAAAAAT
ATGTCAAAGTTCCAGCTGGACATTTCTGGATAGAAGGTGACAACGTAAATAACTCACTTG
ATAGTAATACTTTTGGTCCGGTACCACTTGGTTTGCTTACTGCAAAAGCCACACACATTG
TTTGGCCACTTTCTCGAATAGGATCTTTAAATGTTGATGATGAATCTGTAAGACAACCCA
TTAAATTTGGAAAAAAATCAACGTTAAGCAGCAGTTAG

>g10335.t2 Gene=g10335 Length=169
MRRFLKNLVFGLAAGVTYIDLIGYVARVEGQSMQPTLNPINLESDYVFLNKFKAKDFKVS
RGEIVCLISPKDAQQRIIKRVIAREGDVVHTIGYKEKYVKVPAGHFWIEGDNVNNSLDSN
TFGPVPLGLLTAKATHIVWPLSRIGSLNVDDESVRQPIKFGKKSTLSSS

Protein features from InterProScan

Transcript Database ID Name Start End E.value
15 g10335.t2 CDD cd06530 S26_SPase_I 25 134 1.29755E-24
9 g10335.t2 Gene3D G3DSA:2.10.109.10 Umud Fragment 21 160 2.2E-24
3 g10335.t2 PANTHER PTHR46041:SF2 MITOCHONDRIAL INNER MEMBRANE PROTEASE SUBUNIT 2 3 149 9.5E-53
4 g10335.t2 PANTHER PTHR46041 MITOCHONDRIAL INNER MEMBRANE PROTEASE SUBUNIT 2 3 149 9.5E-53
5 g10335.t2 PRINTS PR00727 Bacterial leader peptidase 1 (S26A) family signature 21 37 1.1E-12
6 g10335.t2 PRINTS PR00727 Bacterial leader peptidase 1 (S26A) family signature 77 89 1.1E-12
7 g10335.t2 PRINTS PR00727 Bacterial leader peptidase 1 (S26A) family signature 101 120 1.1E-12
2 g10335.t2 Pfam PF10502 Signal peptidase, peptidase S26 2 90 2.1E-12
1 g10335.t2 Pfam PF10502 Signal peptidase, peptidase S26 96 139 8.2E-8
11 g10335.t2 Phobius SIGNAL_PEPTIDE Signal peptide region 1 27 -
12 g10335.t2 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 7 -
13 g10335.t2 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 8 19 -
14 g10335.t2 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 20 27 -
10 g10335.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 28 169 -
18 g10335.t2 ProSitePatterns PS00501 Signal peptidases I serine active site. 30 37 -
17 g10335.t2 ProSitePatterns PS00761 Signal peptidases I signature 3. 106 119 -
8 g10335.t2 SUPERFAMILY SSF51306 LexA/Signal peptidase 24 147 7.67E-37
19 g10335.t2 TIGRFAM TIGR02227 sigpep_I_bact: signal peptidase I 16 91 4.1E-13
16 g10335.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 7 26 -

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

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