Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Putative apoptosis-inducing factor 1, mitochondrial.

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 g10206 g10206.t5 TSS g10206.t5 8209898 8209898
chr_1 g10206 g10206.t5 isoform g10206.t5 8209987 8210948
chr_1 g10206 g10206.t5 exon g10206.t5.exon1 8209987 8210071
chr_1 g10206 g10206.t5 cds g10206.t5.CDS1 8209987 8210071
chr_1 g10206 g10206.t5 exon g10206.t5.exon2 8210141 8210184
chr_1 g10206 g10206.t5 cds g10206.t5.CDS2 8210141 8210184
chr_1 g10206 g10206.t5 exon g10206.t5.exon3 8210270 8210431
chr_1 g10206 g10206.t5 cds g10206.t5.CDS3 8210270 8210431
chr_1 g10206 g10206.t5 exon g10206.t5.exon4 8210494 8210575
chr_1 g10206 g10206.t5 cds g10206.t5.CDS4 8210494 8210575
chr_1 g10206 g10206.t5 exon g10206.t5.exon5 8210631 8210948
chr_1 g10206 g10206.t5 cds g10206.t5.CDS5 8210631 8210947
chr_1 g10206 g10206.t5 TTS g10206.t5 8211153 8211153

Sequences

>g10206.t5 Gene=g10206 Length=691
ATGATTCAATTAGCAGCAAATGTACAGGCGACGCTCTATAGAAATTTTTTGCGGACAAGT
AGCAATAAATCATTCGCAATTAATGCATATTCAATCATCAACCGCCATAAATCAACAACA
AATAATCGCAAACAAAATAATATACAGCAAACCGCATTGAAGCTCGATCCATCAAAAAAG
TTAGAGTGTCCACAACAAACATCATCAAGTACTTCAACACCACCTCCTTCAAATAATTAT
AAAATGATCATTGCTGCTGCTGGCGGAGCAATTATTGGTTTCGGCTCTTTTCTATATTAT
CAAAATCAACAAGACAAAGATACGAAAGTTTCACAATCAAGTTCTAGTACAGAATTTAAA
AAGTCAATAATAACTCGAATTCCTGAAGATTCAAAAAACATTCCTAAGCATGTACCTTAT
CTTCTTATCGGAGGTGGAACGGCGAGTTTTGCTGCTTTTAGAGCCATTAAATCAAATGAT
GCAAGAGCAAAAGTTCTTGTTATATCAGATGAACTTGCGATGCCTTATATGCGACCACCA
CTCTCGAAAGAAATTTGGTCCGACACCGATTTAGGACTTGAAAAGGCTAGATTCAAGCAA
TGGAATGGTGCAGAAAGAAGCATTTTTTATGAACCAGAAGATTTTTATATGCCTATTGAA
AAATTAGAAGAATCAAAGAATGGAGGTGTTT

>g10206.t5 Gene=g10206 Length=230
MIQLAANVQATLYRNFLRTSSNKSFAINAYSIINRHKSTTNNRKQNNIQQTALKLDPSKK
LECPQQTSSSTSTPPPSNNYKMIIAAAGGAIIGFGSFLYYQNQQDKDTKVSQSSSSTEFK
KSIITRIPEDSKNIPKHVPYLLIGGGTASFAAFRAIKSNDARAKVLVISDELAMPYMRPP
LSKEIWSDTDLGLEKARFKQWNGAERSIFYEPEDFYMPIEKLEESKNGGV

Protein features from InterProScan

Transcript Database ID Name Start End E.value
5 g10206.t5 Gene3D G3DSA:3.50.50.60 - 139 226 2.9E-18
3 g10206.t5 MobiDBLite mobidb-lite consensus disorder prediction 52 76 -
4 g10206.t5 MobiDBLite mobidb-lite consensus disorder prediction 61 76 -
7 g10206.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 81 -
8 g10206.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 82 100 -
6 g10206.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 101 230 -
2 g10206.t5 SUPERFAMILY SSF51905 FAD/NAD(P)-binding domain 134 193 2.24E-6
1 g10206.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 82 100 -

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

GO terms from InterProScan

There are no GO annotations for this transcript.

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