Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Glucose dehydrogenase.

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 g15827 g15827.t1 isoform g15827.t1 6920066 6921043
chr_4 g15827 g15827.t1 exon g15827.t1.exon1 6920066 6921043
chr_4 g15827 g15827.t1 cds g15827.t1.CDS1 6920066 6921043
chr_4 g15827 g15827.t1 TSS g15827.t1 NA NA
chr_4 g15827 g15827.t1 TTS g15827.t1 NA NA

Sequences

>g15827.t1 Gene=g15827 Length=978
ATGAAAATTTTAGCAAAATTTGAAGTTATTTTGGCCGCTGGAACTTTCCATAGTCCGCAA
ATTTTAATTTTATCAGGCATTGGAGCTTCTGAAGATTTAAAAAGATTAAAAATTTCACAA
GTTGTTGATTTACAAGTTGGAAAATTTTTATATGATCATCCAAGTTTTCCTGGAATTATA
ATTTTGACAAATTTAACAAGTCCTTTTAGCAATTTTTTTAATCCTCAAACTTTTCTTCCT
GTTGCTCTTGATTTTATTAATGGAAAAGGTTTGATGACAATTGCAAATGGAATTGAAGCT
TTAGCTTTTATAAAAAGTCAAAATTCAACAACTTTGGTTGATTCTCAGCCTGATATTGAA
ATTTTTTCAGTTGGTGCAGGACCACAAAGCGATTTTGGACTTGCAGTCAAATATGGAGAG
CGACTTAAAGATGAAATTTATGATGATTGGATTAAACCACTTGAATATCATCCAAATCAT
ACAAGCTTAATGCCAGTTTCACTTTTGCACACTAAATCTGTTGGATTTCTTGAAATAACT
TCAAAAAATATTTTCGATAATCCTAAATTGACTTCAAATTTTCTCAAAGAACCTGAAGAT
ATGAAAATGTTTATAGAAGGAATAAGATTTGTTGAAAAATTAATAGAAACACCACCATAT
AAAGCAGTTGATGCAAAACTTTATAAAAAACCAATAACAGGATGTGAAATGCATGAATTT
GGAAGTGAAAGCTATTGGGAATGCGCAGTAAGAACTTTTACAGTTTCACTTCATCATCAA
CTTGGAACTTGCAAAATGGGAAGTGAAAATGATAAAAATTCTGTTGTTAATTCGAGACTG
AAAGTTATTGGAATGAAAAAATTGCGAATTGTTGATACTTCAGTTGTGCCTGCTGCTGCT
TCAGCTCATACTAATGCTTTGAGTTGTATGATTGGAGAAAGAGCTACAGAATTTATTAGA
GAGGAATATGGAGTGTAA

>g15827.t1 Gene=g15827 Length=325
MKILAKFEVILAAGTFHSPQILILSGIGASEDLKRLKISQVVDLQVGKFLYDHPSFPGII
ILTNLTSPFSNFFNPQTFLPVALDFINGKGLMTIANGIEALAFIKSQNSTTLVDSQPDIE
IFSVGAGPQSDFGLAVKYGERLKDEIYDDWIKPLEYHPNHTSLMPVSLLHTKSVGFLEIT
SKNIFDNPKLTSNFLKEPEDMKMFIEGIRFVEKLIETPPYKAVDAKLYKKPITGCEMHEF
GSESYWECAVRTFTVSLHHQLGTCKMGSENDKNSVVNSRLKVIGMKKLRIVDTSVVPAAA
SAHTNALSCMIGERATEFIREEYGV

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g15827.t1 Gene3D G3DSA:3.50.50.60 - 1 89 9.5E-18
10 g15827.t1 Gene3D G3DSA:3.30.560.10 Glucose Oxidase 90 242 5.7E-10
9 g15827.t1 Gene3D G3DSA:3.50.50.60 - 247 324 4.7E-18
3 g15827.t1 PANTHER PTHR11552:SF208 GLUCOSE DEHYDROGENASE [FAD, QUINONE]-LIKE PROTEIN 2 323 1.9E-93
4 g15827.t1 PANTHER PTHR11552 GLUCOSE-METHANOL-CHOLINE GMC OXIDOREDUCTASE 2 323 1.9E-93
1 g15827.t1 Pfam PF00732 GMC oxidoreductase 2 54 2.3E-12
2 g15827.t1 Pfam PF05199 GMC oxidoreductase 172 315 2.8E-32
7 g15827.t1 ProSitePatterns PS00624 GMC oxidoreductases signature 2. 14 28 -
6 g15827.t1 SUPERFAMILY SSF51905 FAD/NAD(P)-binding domain 3 323 5.44E-25
5 g15827.t1 SUPERFAMILY SSF54373 FAD-linked reductases, C-terminal domain 50 263 3.27E-27

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:0016614 oxidoreductase activity, acting on CH-OH group of donors MF
GO:0050660 flavin adenine dinucleotide binding MF
GO:0055114 NA NA

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