Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Mitochondrial inner membrane protease subunit 1.

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 g13782 g13782.t3 TSS g13782.t3 32378516 32378516
chr_1 g13782 g13782.t3 isoform g13782.t3 32378544 32379142
chr_1 g13782 g13782.t3 exon g13782.t3.exon1 32378544 32378649
chr_1 g13782 g13782.t3 cds g13782.t3.CDS1 32378544 32378649
chr_1 g13782 g13782.t3 exon g13782.t3.exon2 32378711 32379033
chr_1 g13782 g13782.t3 cds g13782.t3.CDS2 32378711 32379033
chr_1 g13782 g13782.t3 exon g13782.t3.exon3 32379099 32379142
chr_1 g13782 g13782.t3 cds g13782.t3.CDS3 32379099 32379140
chr_1 g13782 g13782.t3 TTS g13782.t3 32379263 32379263

Sequences

>g13782.t3 Gene=g13782 Length=473
ATGTCATTAATCTCAAAAATCGCAGCAAAAGCAACGACTGCGATTGGTATAGGATGCACT
ATTCACGTTTTCTTCGAATATGTAGCTGACTTTGTTGTGTGTTCTGGTGAAAGTATGCAG
CCAACACTTTCATCAAATAATATTCTGCTTTGTAACAAAATTGCACAACGACTCAATAAA
ATTAACCGCAATGATATTATTATCGCTGTTCACCCTACATCACCAAAATCTTTGATCTGT
AAAAGAGTTATTGCAATGGAAGGAGATATGATTTTAACAACCGATACAAGTGATGAGGCT
ATTGGCAAAAATGAGACTAAGACAATCATTATAAAACGTGGAAGTTGTTGGATTGAAGGT
GATAATCGAAAAAACAGTACTGATAGTAGAAATTACGGACAAATTCCTGTTGGTCTCATT
AAGAGCAAGGTGATAGCAAAAATATGGCCTTTGAATGAATTTAGAATTTTTTA

>g13782.t3 Gene=g13782 Length=157
MSLISKIAAKATTAIGIGCTIHVFFEYVADFVVCSGESMQPTLSSNNILLCNKIAQRLNK
INRNDIIIAVHPTSPKSLICKRVIAMEGDMILTTDTSDEAIGKNETKTIIIKRGSCWIEG
DNRKNSTDSRNYGQIPVGLIKSKVIAKIWPLNEFRIF

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g13782.t3 CDD cd06530 S26_SPase_I 31 144 1.25474E-25
8 g13782.t3 Gene3D G3DSA:2.10.109.10 Umud Fragment 24 156 5.0E-23
3 g13782.t3 PANTHER PTHR12383 PROTEASE FAMILY S26 MITOCHONDRIAL INNER MEMBRANE PROTEASE-RELATED 3 155 1.3E-49
4 g13782.t3 PRINTS PR00727 Bacterial leader peptidase 1 (S26A) family signature 27 43 1.5E-12
5 g13782.t3 PRINTS PR00727 Bacterial leader peptidase 1 (S26A) family signature 79 91 1.5E-12
6 g13782.t3 PRINTS PR00727 Bacterial leader peptidase 1 (S26A) family signature 111 130 1.5E-12
2 g13782.t3 Pfam PF10502 Signal peptidase, peptidase S26 17 95 2.4E-13
1 g13782.t3 Pfam PF10502 Signal peptidase, peptidase S26 107 149 7.3E-6
10 g13782.t3 ProSitePatterns PS00501 Signal peptidases I serine active site. 36 43 -
7 g13782.t3 SUPERFAMILY SSF51306 LexA/Signal peptidase 27 157 4.45E-37
11 g13782.t3 TIGRFAM TIGR02227 sigpep_I_bact: signal peptidase I 20 95 5.7E-16

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:0004252 serine-type endopeptidase activity MF
GO:0006508 proteolysis BP
GO:0016021 integral component of membrane CC
GO:0008236 serine-type peptidase activity MF

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