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.t4 TTS g13779.t4 32368995 32368995
chr_1 g13779 g13779.t4 isoform g13779.t4 32369575 32371466
chr_1 g13779 g13779.t4 exon g13779.t4.exon1 32369575 32369976
chr_1 g13779 g13779.t4 cds g13779.t4.CDS1 32369576 32369976
chr_1 g13779 g13779.t4 exon g13779.t4.exon2 32370039 32370544
chr_1 g13779 g13779.t4 cds g13779.t4.CDS2 32370039 32370544
chr_1 g13779 g13779.t4 exon g13779.t4.exon3 32370605 32370806
chr_1 g13779 g13779.t4 cds g13779.t4.CDS3 32370605 32370747
chr_1 g13779 g13779.t4 exon g13779.t4.exon4 32371257 32371466
chr_1 g13779 g13779.t4 TSS g13779.t4 NA NA

Sequences

>g13779.t4 Gene=g13779 Length=1320
AAAAGTCAACTTTACTAAGCATAAATAGGCATGAAAATATTTTTATCAATATGACATAGC
CACAAAAATTTGATAAGTTTATTTAAAATTATTTTATCAGTAAATTTTATGTTTTTAGTG
CAAGTCAAGCATGATTTGTAGATTTTATAGTGACATTATCTTGATTGAAGTTTTTAACTC
AATGATTTGTGCGATGGTGAAATTAAAAAGGTTCAGATGAATTTATTGAAGGAGTCGTTT
GCCAAGAGAACGAAATTGGCGAGAATGAGATGAAAAATTTTGATCTCGGTGAATCAAAGG
TGTTAATTGTAAAGCAAAATGGTAAAATTTCGGCCTTGGGAACAAAATGCAGTCACTACG
GCGCTCCACTTGCAACCGGTGCTTTAGGCGATGGAAGAATTCGTTGTCCATGGCATGGTG
CTTGCTTTAACATAACTAGTGGTGACATTGAGGACTTTCCAGGTCAAGATTCAATTCCCT
GCTATCAAGTAAAAATCGAAAAAGGTCAAGTCAAGGTTCGTGCAAGAAAATCTGAACTGC
AAACGAACAAACGAGTTCATAATTTTGCAAAGCGTGACAAAAATGACAGTAGAACATTTG
TTATTGTGGGCGGTGGACCAAGTGGTGCTATTTGTGCTGAAACTCTTCGTGCTAAAGGCT
TTACAGGTCGCATTGTGATGATTTCAAATGAAACAACACTGCCTTATGATCGTATCAAGT
GTAGTAAAGTTATGGATGCCAAAATCGAAAGTCTTCACTTGAGAACTCAACAATTTTATG
ATGATAATGAAATTGAAGTTATGACTGGTACAGCTGCAACATCATTAAACACACAAAATA
AAGAAATTTCAATTGATAATGGCTATAAAATTAAATATGACAAAATTTATTTGGCTACTG
GATCATCTGCTAGAAAAATTACAATTCCTGGCTCAGACTTGAAAAACATTTTTGTTCTTC
GCAATATCAATGATGCACATGAAATTAATGCACAATTGAATGATCAAACTCATGTAGTTG
TACTTGGTGTAAGTTTTATCGGAATGGAAGCTGCAGCATATTGTGTGAAAAAAGCCGCAA
AAGTGACTGTAATTGGTCGCGACCAATTTCCGCTTCGAGCATTTGGCAATGAAATTGGTG
AAACCATTATGAAATTTTTTGAGGAACAAAATGTTCATTTTATTATGAGAAGTGGAATTA
AAGAATGTGTTGGTGATGGCACAATTGATTCTGTGATTCTCAATGATGGAACAAAATTGA
AAGCAGACATTCTCATCACTGGTGTAGGTTCAACACTTAATACAGAATTTTTGAAAGATA

>g13779.t4 Gene=g13779 Length=350
MKNFDLGESKVLIVKQNGKISALGTKCSHYGAPLATGALGDGRIRCPWHGACFNITSGDI
EDFPGQDSIPCYQVKIEKGQVKVRARKSELQTNKRVHNFAKRDKNDSRTFVIVGGGPSGA
ICAETLRAKGFTGRIVMISNETTLPYDRIKCSKVMDAKIESLHLRTQQFYDDNEIEVMTG
TAATSLNTQNKEISIDNGYKIKYDKIYLATGSSARKITIPGSDLKNIFVLRNINDAHEIN
AQLNDQTHVVVLGVSFIGMEAAAYCVKKAAKVTVIGRDQFPLRAFGNEIGETIMKFFEEQ
NVHFIMRSGIKECVGDGTIDSVILNDGTKLKADILITGVGSTLNTEFLKD

Protein features from InterProScan

Transcript Database ID Name Start End E.value
18 g13779.t4 CDD cd03478 Rieske_AIFL_N 1 81 0.000
16 g13779.t4 Gene3D G3DSA:2.102.10.10 - 1 96 0.000
14 g13779.t4 Gene3D G3DSA:3.50.50.60 - 111 349 0.000
15 g13779.t4 Gene3D G3DSA:3.50.50.60 - 216 339 0.000
3 g13779.t4 PANTHER PTHR43557 APOPTOSIS-INDUCING FACTOR 1 1 350 0.000
4 g13779.t4 PANTHER PTHR43557:SF7 APOPTOSIS-INDUCING FACTOR MITOCHONDRIA-ASSOCIATED 4 1 350 0.000
10 g13779.t4 PRINTS PR00411 Pyridine nucleotide disulphide reductase class-I signature 109 131 0.000
6 g13779.t4 PRINTS PR00368 FAD-dependent pyridine nucleotide reductase signature 110 129 0.000
7 g13779.t4 PRINTS PR00368 FAD-dependent pyridine nucleotide reductase signature 203 221 0.000
5 g13779.t4 PRINTS PR00368 FAD-dependent pyridine nucleotide reductase signature 248 266 0.000
11 g13779.t4 PRINTS PR00411 Pyridine nucleotide disulphide reductase class-I signature 248 273 0.000
8 g13779.t4 PRINTS PR00368 FAD-dependent pyridine nucleotide reductase signature 332 348 0.000
9 g13779.t4 PRINTS PR00411 Pyridine nucleotide disulphide reductase class-I signature 333 347 0.000
1 g13779.t4 Pfam PF00355 Rieske [2Fe-2S] domain 2 72 0.000
2 g13779.t4 Pfam PF07992 Pyridine nucleotide-disulphide oxidoreductase 110 348 0.000
17 g13779.t4 ProSiteProfiles PS51296 Rieske [2Fe-2S] iron-sulfur domain profile. 1 83 24.213
12 g13779.t4 SUPERFAMILY SSF50022 ISP domain 4 84 0.000
13 g13779.t4 SUPERFAMILY SSF51905 FAD/NAD(P)-binding domain 108 293 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