Gene loci information

Transcript annotation

  • This transcript has been annotated as Mitochondrial import receptor subunit TOM40 homolog 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_2 g7299 g7299.t8 TTS g7299.t8 22809516 22809516
chr_2 g7299 g7299.t8 isoform g7299.t8 22809984 22810825
chr_2 g7299 g7299.t8 exon g7299.t8.exon1 22809984 22810182
chr_2 g7299 g7299.t8 cds g7299.t8.CDS1 22809985 22810182
chr_2 g7299 g7299.t8 exon g7299.t8.exon2 22810244 22810506
chr_2 g7299 g7299.t8 cds g7299.t8.CDS2 22810244 22810506
chr_2 g7299 g7299.t8 exon g7299.t8.exon3 22810663 22810825
chr_2 g7299 g7299.t8 cds g7299.t8.CDS3 22810663 22810825
chr_2 g7299 g7299.t8 TSS g7299.t8 22810938 22810938

Sequences

>g7299.t8 Gene=g7299 Length=625
ATGGGCAACGTTGGCGCAAGTTCAAAGCCAATTCAAGATAAATTTGATTTGCAAGCAGCT
CCAAAACCAATGGCAGACGATCAAAATCAATCAATTAGCAATAGCAATAAAACGCCACTT
GAAAATCCAGGAACTATTGAAGAGTTGCATAAGAAATGCAAAGATGTCATGCCAATATTC
TTTGAAGGTGCAAAGTTAATGGTGAATAAGGGACTGAGTAATCATTTTCAAGTTTCGCAT
ACTATCAATTTGTGTTCTGTAAATCCAAGTGGATATAAATTTGGAGCGACATATGTTGGA
ACAAAGCAATTTTCACCAAACGAAGCTTTTCCAGTCATTCTCGGTGATATTGATCCATCG
GGTAATCTTAATGCTAACATCATTCATCAGTTTGCACCTAATATTAGATGTAAATTTGCC
TCTCAAATTCAACAAAGCAAGATGACAGCTGCACAACTAACAACAGATTATAAAGGACAA
GATTTTACAGCATCAGTGACTGTTGGCAATCCTAATATTATAAATAATTCCGGTGTTTTC
GTTGCTCATTACCTGCAATCAGTAACTAATAAACTTGCGCTTGGAGCTGAGCTTGCTTAT
CAATATGGACCAGCAGTGCCTGGAG

>g7299.t8 Gene=g7299 Length=208
MGNVGASSKPIQDKFDLQAAPKPMADDQNQSISNSNKTPLENPGTIEELHKKCKDVMPIF
FEGAKLMVNKGLSNHFQVSHTINLCSVNPSGYKFGATYVGTKQFSPNEAFPVILGDIDPS
GNLNANIIHQFAPNIRCKFASQIQQSKMTAAQLTTDYKGQDFTASVTVGNPNIINNSGVF
VAHYLQSVTNKLALGAELAYQYGPAVPG

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g7299.t8 CDD cd07305 Porin3_Tom40 40 205 6.85588E-82
5 g7299.t8 MobiDBLite mobidb-lite consensus disorder prediction 1 43 -
4 g7299.t8 MobiDBLite mobidb-lite consensus disorder prediction 24 42 -
2 g7299.t8 PANTHER PTHR10802 MITOCHONDRIAL IMPORT RECEPTOR SUBUNIT TOM40 20 204 6.4E-72
3 g7299.t8 PANTHER PTHR10802:SF1 MITOCHONDRIAL IMPORT RECEPTOR SUBUNIT TOM40 HOMOLOG 20 204 6.4E-72
1 g7299.t8 Pfam PF01459 Eukaryotic porin 42 204 2.3E-45

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:0055085 transmembrane transport BP
GO:0008320 protein transmembrane transporter activity MF
GO:0005741 mitochondrial outer membrane CC
GO:0030150 protein import into mitochondrial matrix BP

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