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.t3 TTS g13779.t3 32368995 32368995
chr_1 g13779 g13779.t3 isoform g13779.t3 32369096 32370539
chr_1 g13779 g13779.t3 exon g13779.t3.exon1 32369096 32369976
chr_1 g13779 g13779.t3 cds g13779.t3.CDS1 32369096 32369976
chr_1 g13779 g13779.t3 exon g13779.t3.exon2 32370039 32370539
chr_1 g13779 g13779.t3 cds g13779.t3.CDS2 32370039 32370279
chr_1 g13779 g13779.t3 TSS g13779.t3 32370956 32370956

Sequences

>g13779.t3 Gene=g13779 Length=1382
GTGCTTGCTTTAACATAACTAGTGGTGACATTGAGGACTTTCCAGGTCAAGATTCAATTC
CCTGCTATCAAGTAAAAATCGAAAAAGGTCAAGTCAAGGTTCGTGCAAGAAAATCTGAAC
TGCAAACGAACAAACGAGTTCATAATTTTGCAAAGCGTGACAAAAATGACAGTAGAACAT
TTGTTATTGTGGGCGGTGGACCAAGTGGTGCTATTTGTGCTGAAACTCTTCGTGCTAAAG
GCTTTACAGGTCGCATTGTGATGATTTCAAATGAAACAACACTGCCTTATGATCGTATCA
AGTGTAGTAAAGTTATGGATGCCAAAATCGAAAGTCTTCACTTGAGAACTCAACAATTTT
ATGATGATAATGAAATTGAAGTTATGACTGGTACAGCTGCAACATCATTAAACACACAAA
ATAAAGAAATTTCAATTGATAATGGCTATAAAATTAAATATGACAAAATTTATTTGGCTA
CTGGATCATCTGCTAGAAAAATTACAATTCCTGGCTCAGACTTGAAAAACATTTTTGTTC
TTCGCAATATCAATGATGCACATGAAATTAATGCACAATTGAATGATCAAACTCATGTAG
TTGTACTTGGTGTAAGTTTTATCGGAATGGAAGCTGCAGCATATTGTGTGAAAAAAGCCG
CAAAAGTGACTGTAATTGGTCGCGACCAATTTCCGCTTCGAGCATTTGGCAATGAAATTG
GTGAAACCATTATGAAATTTTTTGAGGAACAAAATGTTCATTTTATTATGAGAAGTGGAA
TTAAAGAATGTGTTGGTGATGGCACAATTGATTCTGTGATTCTCAATGATGGAACAAAAT
TGAAAGCAGACATTCTCATCACTGGTGTAGGTTCAACACTTAATACAGAATTTTTGAAAG
ATAGTGGTATTGCAATAAATAAAAATGGATCGATTGATACAAATGATTACCTTGAAAGCA
ATATTCCTGATGTCTATGTTGGTGGTGATATTGCAAATAGCCCAATTTTCATGACAAATC
ATCGTGAGACAATCGGTCATTATGGTTTAGCTCAATATCATGGTAAAGTTGCAGCCAGCA
ATATGTGTGGTGTCCAGAAAAAGCTTAAAGCTGTACCATTCTTCTGGATGATGGTTTTTG
GCAAATCATTCCGTTATGCAGGTCATGGAAGATATTCTGAAGTGAAGATCGATGGAAGTC
TGGAAGATTTAAAATTCATCGCTTATTATATCGACGCTGATGGTAAAGTTGTTGCAATTT
GTACTTGTGGTCGTGATCCAATTGCTTCACAATTTGCTGAATTCTTAGCTAATGGAAAAA
TATTAACAAAAGCTCAACTTGAAACTGATCCTTTAGGATGGACAAAAACTGTAAATGCTT
AA

>g13779.t3 Gene=g13779 Length=373
MISNETTLPYDRIKCSKVMDAKIESLHLRTQQFYDDNEIEVMTGTAATSLNTQNKEISID
NGYKIKYDKIYLATGSSARKITIPGSDLKNIFVLRNINDAHEINAQLNDQTHVVVLGVSF
IGMEAAAYCVKKAAKVTVIGRDQFPLRAFGNEIGETIMKFFEEQNVHFIMRSGIKECVGD
GTIDSVILNDGTKLKADILITGVGSTLNTEFLKDSGIAINKNGSIDTNDYLESNIPDVYV
GGDIANSPIFMTNHRETIGHYGLAQYHGKVAASNMCGVQKKLKAVPFFWMMVFGKSFRYA
GHGRYSEVKIDGSLEDLKFIAYYIDADGKVVAICTCGRDPIASQFAEFLANGKILTKAQL
ETDPLGWTKTVNA

Protein features from InterProScan

Transcript Database ID Name Start End E.value
15 g13779.t3 Gene3D G3DSA:3.50.50.60 - 1 276 0
16 g13779.t3 Gene3D G3DSA:3.50.50.60 - 80 203 0
2 g13779.t3 PANTHER PTHR43557:SF2 SD06560P 1 361 0
3 g13779.t3 PANTHER PTHR43557 APOPTOSIS-INDUCING FACTOR 1 1 361 0
7 g13779.t3 PRINTS PR00368 FAD-dependent pyridine nucleotide reductase signature 67 85 0
10 g13779.t3 PRINTS PR00411 Pyridine nucleotide disulphide reductase class-I signature 70 79 0
6 g13779.t3 PRINTS PR00368 FAD-dependent pyridine nucleotide reductase signature 112 130 0
11 g13779.t3 PRINTS PR00411 Pyridine nucleotide disulphide reductase class-I signature 112 137 0
5 g13779.t3 PRINTS PR00368 FAD-dependent pyridine nucleotide reductase signature 196 212 0
9 g13779.t3 PRINTS PR00411 Pyridine nucleotide disulphide reductase class-I signature 197 211 0
4 g13779.t3 PRINTS PR00368 FAD-dependent pyridine nucleotide reductase signature 223 245 0
8 g13779.t3 PRINTS PR00411 Pyridine nucleotide disulphide reductase class-I signature 238 245 0
1 g13779.t3 Pfam PF07992 Pyridine nucleotide-disulphide oxidoreductase 1 253 0
14 g13779.t3 SUPERFAMILY SSF51905 FAD/NAD(P)-binding domain 24 100 0
13 g13779.t3 SUPERFAMILY SSF51905 FAD/NAD(P)-binding domain 80 279 0
12 g13779.t3 SUPERFAMILY SSF55424 FAD/NAD-linked reductases, dimerisation (C-terminal) domain 281 369 0

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:0050660 flavin adenine dinucleotide binding MF
GO:0055114 NA NA
GO:0016491 oxidoreductase activity MF

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