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_3 g2978 g2978.t2 TSS g2978.t2 21694245 21694245
chr_3 g2978 g2978.t2 isoform g2978.t2 21694320 21695771
chr_3 g2978 g2978.t2 exon g2978.t2.exon1 21694320 21694518
chr_3 g2978 g2978.t2 exon g2978.t2.exon2 21694575 21694658
chr_3 g2978 g2978.t2 exon g2978.t2.exon3 21694956 21695140
chr_3 g2978 g2978.t2 cds g2978.t2.CDS1 21695040 21695140
chr_3 g2978 g2978.t2 exon g2978.t2.exon4 21695199 21695771
chr_3 g2978 g2978.t2 cds g2978.t2.CDS2 21695199 21695769
chr_3 g2978 g2978.t2 TTS g2978.t2 NA NA

Sequences

>g2978.t2 Gene=g2978 Length=1041
ATGGAATTTATTCCACAAACATGTGCCGCGACAAGTGTCGGTGCTGCAAATGGAATGTTT
AATTTATTGTTCCAAACTCTGTTAGCAGCACACTGTTCAATTTCACCACCTGATAAATGG
CCAAAAGACTATGGACCTACAGCGATTAAAGAAGGTTTAGAAGAGTATGATTTTATAATT
GTTGGTGCTGGAAGTGCAGGAAGCGTCTTAGCAAATCGTCTCACTGAAAATAAAGATTGG
AAAGTACTGCTCGTTGAAGCTGGTGGAGATCCGCCAATTGAGAGTACCGGCAAATTACCA
TTTACTACAAAAAACTGAATACGATTGGCAATATTATTTGGAGAAATCTGATAAAGCAAG
TTTAGGGATGCCAAATGGTTGTTATTGGCCACGTGGTAAAGTATTGGGTGGAAGCAGTGC
CATAAACGCTCTACTTTATGTTCGTGGAAATCGTGCGGATTATGATGAATGGGAGGAATT
GGGAAATAAAGGATGGAAATTTAGAGACGTATTAAAATATTTCAAGAAAGCTGAAAATAA
TTCAGTATCACAAGAAGATGAGAATTGGGCAAAAATGCATGGAAAAGAAGGTCCACTTTA
TGTTGATTATTTCTTTAGTTATGATCCCATAAAAGATATGTTGACACAAGCTGCAAGTGA
AATAAATATGGATTTTACAGAAAATGTAAATGGTGAATCACAAATGGGCTATTCAATAGT
TCAAGGAACAATAAAACGTGGCATTAGACAAAGTACAGCAACTGCTTACATTTTACCAAT
CGCAGATAGACCAAATTTACATATCATCAAGCATGCTCAAGTAACAAAATTAATAATCAA
CGATAAAGGACTTGCTGAAGGCATTCATTTTGTATTAAATGGCAAAAAGATGAAAGCTAA
AGCCAATTTTGAAGTCATTTTATCAGCAGGTTCTATTGGCAGTCCGCAAATTCTATTAAA
CTCTGGCATTGGCCCAAAAGAACATTTGAAAGAAATCGGAATTAAAGTGAAACATGATTT
GCAAGGTGTAGGAAAGAACTT

>g2978.t2 Gene=g2978 Length=224
MPNGCYWPRGKVLGGSSAINALLYVRGNRADYDEWEELGNKGWKFRDVLKYFKKAENNSV
SQEDENWAKMHGKEGPLYVDYFFSYDPIKDMLTQAASEINMDFTENVNGESQMGYSIVQG
TIKRGIRQSTATAYILPIADRPNLHIIKHAQVTKLIINDKGLAEGIHFVLNGKKMKAKAN
FEVILSAGSIGSPQILLNSGIGPKEHLKEIGIKVKHDLQGVGKN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g2978.t2 Gene3D G3DSA:3.50.50.60 - 2 107 3.2E-27
6 g2978.t2 Gene3D G3DSA:3.50.50.60 - 108 224 1.3E-34
2 g2978.t2 PANTHER PTHR11552 GLUCOSE-METHANOL-CHOLINE GMC OXIDOREDUCTASE 4 224 1.0E-81
1 g2978.t2 Pfam PF00732 GMC oxidoreductase 5 224 4.2E-61
5 g2978.t2 ProSitePatterns PS00623 GMC oxidoreductases signature 1. 10 33 -
4 g2978.t2 ProSitePatterns PS00624 GMC oxidoreductases signature 2. 188 202 -
3 g2978.t2 SUPERFAMILY SSF51905 FAD/NAD(P)-binding domain 4 222 8.55E-44

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