Gene loci information

Transcript annotation

  • This transcript has been annotated as Apoptosis-inducing factor 3.

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 g13779 g13779.t5 isoform g13779.t5 32370060 32375791
chr_1 g13779 g13779.t5 exon g13779.t5.exon1 32370060 32370544
chr_1 g13779 g13779.t5 cds g13779.t5.CDS1 32370061 32370544
chr_1 g13779 g13779.t5 exon g13779.t5.exon2 32370605 32370806
chr_1 g13779 g13779.t5 cds g13779.t5.CDS2 32370605 32370806
chr_1 g13779 g13779.t5 exon g13779.t5.exon3 32375240 32375334
chr_1 g13779 g13779.t5 cds g13779.t5.CDS3 32375240 32375297
chr_1 g13779 g13779.t5 exon g13779.t5.exon4 32375653 32375791
chr_1 g13779 g13779.t5 TSS g13779.t5 32375825 32375825
chr_1 g13779 g13779.t5 TTS g13779.t5 NA NA

Sequences

>g13779.t5 Gene=g13779 Length=921
AAATAATAAAAAGTTAATTTCTCTCCAATAATTATTTCAAGTCATGCCAGATTGGCAACA
AATTGAAAAACCTTTTTTATGATCTTCTACTGATTCACACAGCAATCATGACTTCATTTC
TTTTGAGAAGGTTTCTGAGCAATCAGATTATCAGAAGAAGTCTCCTACAGAATACAATGG
GAGCTGGCAGCTGTAAAGCATTCTCAAGACGATCTCACCATTCATCAAACAGTGGTTCAG
ATGAATTTATTGAAGGAGTCGTTTGCCAAGAGAACGAAATTGGCGAGAATGAGATGAAAA
ATTTTGATCTCGGTGAATCAAAGGTGTTAATTGTAAAGCAAAATGGTAAAATTTCGGCCT
TGGGAACAAAATGCAGTCACTACGGCGCTCCACTTGCAACCGGTGCTTTAGGCGATGGAA
GAATTCGTTGTCCATGGCATGGTGCTTGCTTTAACATAACTAGTGGTGACATTGAGGACT
TTCCAGGTCAAGATTCAATTCCCTGCTATCAAGTAAAAATCGAAAAAGGTCAAGTCAAGG
TTCGTGCAAGAAAATCTGAACTGCAAACGAACAAACGAGTTCATAATTTTGCAAAGCGTG
ACAAAAATGACAGTAGAACATTTGTTATTGTGGGCGGTGGACCAAGTGGTGCTATTTGTG
CTGAAACTCTTCGTGCTAAAGGCTTTACAGGTCGCATTGTGATGATTTCAAATGAAACAA
CACTGCCTTATGATCGTATCAAGTGTAGTAAAGTTATGGATGCCAAAATCGAAAGTCTTC
ACTTGAGAACTCAACAATTTTATGATGATAATGAAATTGAAGTTATGACTGGTACAGCTG
CAACATCATTAAACACACAAAATAAAGAAATTTCAATTGATAATGGCTATAAAATTAAAT
ATGACAAAATTTATTTGGCTA

>g13779.t5 Gene=g13779 Length=248
MGAGSCKAFSRRSHHSSNSGSDEFIEGVVCQENEIGENEMKNFDLGESKVLIVKQNGKIS
ALGTKCSHYGAPLATGALGDGRIRCPWHGACFNITSGDIEDFPGQDSIPCYQVKIEKGQV
KVRARKSELQTNKRVHNFAKRDKNDSRTFVIVGGGPSGAICAETLRAKGFTGRIVMISNE
TTLPYDRIKCSKVMDAKIESLHLRTQQFYDDNEIEVMTGTAATSLNTQNKEISIDNGYKI
KYDKIYLA

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g13779.t5 CDD cd03478 Rieske_AIFL_N 28 120 0.000
8 g13779.t5 Gene3D G3DSA:2.102.10.10 - 26 135 0.000
7 g13779.t5 Gene3D G3DSA:3.50.50.60 - 139 248 0.000
3 g13779.t5 PANTHER PTHR43557 APOPTOSIS-INDUCING FACTOR 1 27 247 0.000
4 g13779.t5 PANTHER PTHR43557:SF7 APOPTOSIS-INDUCING FACTOR MITOCHONDRIA-ASSOCIATED 4 27 247 0.000
1 g13779.t5 Pfam PF00355 Rieske [2Fe-2S] domain 28 111 0.000
2 g13779.t5 Pfam PF07992 Pyridine nucleotide-disulphide oxidoreductase 149 248 0.000
9 g13779.t5 ProSiteProfiles PS51296 Rieske [2Fe-2S] iron-sulfur domain profile. 27 122 25.499
5 g13779.t5 SUPERFAMILY SSF50022 ISP domain 28 123 0.000
6 g13779.t5 SUPERFAMILY SSF51905 FAD/NAD(P)-binding domain 147 248 0.000

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:0051537 2 iron, 2 sulfur cluster binding MF
GO:0055114 NA NA
GO:0016491 oxidoreductase activity MF

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