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.t1 TTS g7299.t1 22809516 22809516
chr_2 g7299 g7299.t1 isoform g7299.t1 22809567 22810825
chr_2 g7299 g7299.t1 exon g7299.t1.exon1 22809567 22809894
chr_2 g7299 g7299.t1 cds g7299.t1.CDS1 22809567 22809894
chr_2 g7299 g7299.t1 exon g7299.t1.exon2 22809953 22810182
chr_2 g7299 g7299.t1 cds g7299.t1.CDS2 22809953 22810182
chr_2 g7299 g7299.t1 exon g7299.t1.exon3 22810244 22810506
chr_2 g7299 g7299.t1 cds g7299.t1.CDS3 22810244 22810506
chr_2 g7299 g7299.t1 exon g7299.t1.exon4 22810663 22810825
chr_2 g7299 g7299.t1 cds g7299.t1.CDS4 22810663 22810825
chr_2 g7299 g7299.t1 TSS g7299.t1 22810938 22810938

Sequences

>g7299.t1 Gene=g7299 Length=984
ATGGGCAACGTTGGCGCAAGTTCAAAGCCAATTCAAGATAAATTTGATTTGCAAGCAGCT
CCAAAACCAATGGCAGACGATCAAAATCAATCAATTAGCAATAGCAATAAAACGCCACTT
GAAAATCCAGGAACTATTGAAGAGTTGCATAAGAAATGCAAAGATGTCATGCCAATATTC
TTTGAAGGTGCAAAGTTAATGGTGAATAAGGGACTGAGTAATCATTTTCAAGTTTCGCAT
ACTATCAATTTGTGTTCTGTAAATCCAAGTGGATATAAATTTGGAGCGACATATGTTGGA
ACAAAGCAATTTTCACCAAACGAAGCTTTTCCAGTCATTCTCGGTGATATTGATCCATCG
GGTAATCTTAATGCTAACATCATTCATCAGTTTGCACCTAATATTAGATGTAAATTTGCC
TCTCAAATTCAACAAAGCAAGATGACAGCTGCACAACTAACAACAGATTATAAAGGACAA
GATTTTACAGCATCAGTGACTGTTGGCAATCCTAATATTATAAATAATTCCGGTGTTTTC
GTTGCTCATTACCTGCAATCAGTAACTAATAAACTTGCGCTTGGAGCTGAGCTTGCTTAT
CAATATGGACCAGCAGTGCCTGGAGGTGAAATTGCAATTGTTTCAGCTGCTGGAAGATAT
GGCGATGAAAATTCGGTATGGAGTGGTACTTTAGGAATGAGCGGAATTCATTTGTGCTAT
TATCAAAGAGCGAGTGAGCAATTGCAAATTGGTGTTGAGCTAGAAACAAGTTTACGAATG
CAGGAATCAACAGCCACAATTGGCTATCAAATAGACTTGCCAAAAGCTGATTTAGTGTTT
CGCGGAATGGTGGACACAAATTGGACTGTGGCAGCAGTGTTAGAAAAGAAACTTCAGCCT
TTACCGTTTTCATTTGCTCTTAGTGGATTACTAAATCATCAAAAAAATTCCTTTAGGCTC
GGTTGTGGCCTAATTATCGGTTAG

>g7299.t1 Gene=g7299 Length=327
MGNVGASSKPIQDKFDLQAAPKPMADDQNQSISNSNKTPLENPGTIEELHKKCKDVMPIF
FEGAKLMVNKGLSNHFQVSHTINLCSVNPSGYKFGATYVGTKQFSPNEAFPVILGDIDPS
GNLNANIIHQFAPNIRCKFASQIQQSKMTAAQLTTDYKGQDFTASVTVGNPNIINNSGVF
VAHYLQSVTNKLALGAELAYQYGPAVPGGEIAIVSAAGRYGDENSVWSGTLGMSGIHLCY
YQRASEQLQIGVELETSLRMQESTATIGYQIDLPKADLVFRGMVDTNWTVAAVLEKKLQP
LPFSFALSGLLNHQKNSFRLGCGLIIG

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g7299.t1 CDD cd07305 Porin3_Tom40 40 327 4.04278E-142
5 g7299.t1 MobiDBLite mobidb-lite consensus disorder prediction 1 43 -
4 g7299.t1 MobiDBLite mobidb-lite consensus disorder prediction 24 42 -
2 g7299.t1 PANTHER PTHR10802 MITOCHONDRIAL IMPORT RECEPTOR SUBUNIT TOM40 20 327 5.3E-120
3 g7299.t1 PANTHER PTHR10802:SF1 MITOCHONDRIAL IMPORT RECEPTOR SUBUNIT TOM40 HOMOLOG 20 327 5.3E-120
1 g7299.t1 Pfam PF01459 Eukaryotic porin 42 321 9.0E-81

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

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