Gene loci information

Transcript annotation

  • This transcript has been annotated as Aldehyde dehydrogenase family 3 member B1.

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_4 g16545 g16545.t8 isoform g16545.t8 9879944 9884599
chr_4 g16545 g16545.t8 exon g16545.t8.exon1 9879944 9879945
chr_4 g16545 g16545.t8 cds g16545.t8.CDS1 9879944 9879945
chr_4 g16545 g16545.t8 exon g16545.t8.exon2 9880006 9880159
chr_4 g16545 g16545.t8 cds g16545.t8.CDS2 9880006 9880159
chr_4 g16545 g16545.t8 exon g16545.t8.exon3 9880376 9880521
chr_4 g16545 g16545.t8 cds g16545.t8.CDS3 9880376 9880521
chr_4 g16545 g16545.t8 exon g16545.t8.exon4 9880692 9880767
chr_4 g16545 g16545.t8 cds g16545.t8.CDS4 9880692 9880767
chr_4 g16545 g16545.t8 exon g16545.t8.exon5 9881320 9881410
chr_4 g16545 g16545.t8 cds g16545.t8.CDS5 9881320 9881410
chr_4 g16545 g16545.t8 exon g16545.t8.exon6 9881479 9881708
chr_4 g16545 g16545.t8 cds g16545.t8.CDS6 9881479 9881708
chr_4 g16545 g16545.t8 exon g16545.t8.exon7 9884561 9884599
chr_4 g16545 g16545.t8 cds g16545.t8.CDS7 9884561 9884599
chr_4 g16545 g16545.t8 TSS g16545.t8 NA NA
chr_4 g16545 g16545.t8 TTS g16545.t8 NA NA

Sequences

>g16545.t8 Gene=g16545 Length=738
ATGCTGAGAAATCGAAAAGATGGAAAATCAACGCTGGAAACCAGCGATATCAAGCGGGAA
TTTCCCTTTGATTTGCTTTCAAATCAAACGAAGAATTTGATAGATTTTGAGATGGATGGC
TACGAGAACATTTTAGGTCAATTGCGTGCAACATTTCGAAGTGGAAAGACAAAAGATTTA
AAATACAGAAAGAAACAATTGGAAGCTTTGTTGAGATTGTATGAAGAAAATCGTGAAGAA
ATTATCAATGCTTTGGCAGCTGATTTGAGACAAGAAGCAATTGTATTTGAAATTGATGTA
ATGACAAATGAACTGCTTGGACTGATAAATAATCTTGATGAATATGCAGCACCGATTAAA
CCTGATAAAGGAGTCGCAAACATGTTTGACAAAGTGACAATTTTAAAAGAGCCTTTTGGT
GTTGTTTTAGTTATTGGTGCCTGGAATTATCCATTACAACTTTTACTTGTGCCTGTCGCT
GGAGCAATCGCAGCTGGAAATTGTGTCGTTCTCAAACCAAGTGAAATTTCAGTTCATTGC
TCGAGATTCATTGCTGAAACCTTTCCAAAGTATTTAGATAGTGATGCCTATCAAGTAATA
AGTGGAGGAATTGAAGAAACAACATCACTTTTAAAACATCAATTTGATTATATTTTTTAC
ACTGGATCAAATCGTGTTGGTCAAATTGTTCATGCAGCAGCTAATAAATATTTAACACCA
ACTACACTCGAATTAGGC

>g16545.t8 Gene=g16545 Length=246
MLRNRKDGKSTLETSDIKREFPFDLLSNQTKNLIDFEMDGYENILGQLRATFRSGKTKDL
KYRKKQLEALLRLYEENREEIINALAADLRQEAIVFEIDVMTNELLGLINNLDEYAAPIK
PDKGVANMFDKVTILKEPFGVVLVIGAWNYPLQLLLVPVAGAIAAGNCVVLKPSEISVHC
SRFIAETFPKYLDSDAYQVISGGIEETTSLLKHQFDYIFYTGSNRVGQIVHAAANKYLTP
TTLELG

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g16545.t8 Coils Coil Coil 57 84 -
5 g16545.t8 Gene3D G3DSA:3.40.605.10 Aldehyde Dehydrogenase; Chain A 43 246 5.1E-59
2 g16545.t8 PANTHER PTHR43570:SF29 ALDEHYDE DEHYDROGENASE TYPE III, ISOFORM Q 36 246 8.4E-91
3 g16545.t8 PANTHER PTHR43570 ALDEHYDE DEHYDROGENASE 36 246 8.4E-91
1 g16545.t8 Pfam PF00171 Aldehyde dehydrogenase family 49 246 3.9E-32
4 g16545.t8 SUPERFAMILY SSF53720 ALDH-like 45 246 1.44E-45

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: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. There were no conditions that were differentially expressed