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.t3 TSS g2978.t3 21694245 21694245
chr_3 g2978 g2978.t3 isoform g2978.t3 21694320 21697873
chr_3 g2978 g2978.t3 exon g2978.t3.exon1 21694320 21694518
chr_3 g2978 g2978.t3 exon g2978.t3.exon2 21694575 21694667
chr_3 g2978 g2978.t3 exon g2978.t3.exon3 21696845 21696972
chr_3 g2978 g2978.t3 exon g2978.t3.exon4 21697033 21697873
chr_3 g2978 g2978.t3 cds g2978.t3.CDS1 21697052 21697873
chr_3 g2978 g2978.t3 TTS g2978.t3 21698549 21698549

Sequences

>g2978.t3 Gene=g2978 Length=1261
ATGGAATTTATTCCACAAACATGTGCCGCGACAAGTGTCGGTGCTGCAAATGGAATGTTT
AATTTATTGTTCCAAACTCTGTTAGCAGCACACTGTTCAATTTCACCACCTGATAAATGG
CCAAAAGACTATGGACCTACAGCGATTAAAGAAGGTTTAGAAGAGTATGATTTTATAATT
GTTGGTGCTGGAAGTGCAGGAAGCGTCTTAGCAAATCGTCTCACTGAAAATAAAGATTGG
AAAGTACTGCTCGTTGAAGCTGGTGGAGATCCGCCAATTGAGAGTGAGGCAAGTGCCATA
TTTGTTTCTTTCAACATTAAACACTAGTCATACATGGAATCATTTTGCAGAGAAATCAGA
CAAAGCAAGTAAAGCCTTTGCAAAAGGGAGCTTTTGGCCAAGTGGAAAAACGCTTGGAGG
ATCAAGTGCTGTTAATGCAATGCTCTATATTCGAGGTAATCCACGTGATTTTAATTCATG
GAATTTAACAGGATGGAAATGGGATGACGTTTTACCTTATTACAAAAAGTCTGAATCAAA
TCAGCATGAGTGGCTGTTTGAATTGACACAAGATAGATTTCATAATAAAGATGGTTTGCT
GTCTGTTGATGGATATAATAGTATAGAGACGATTAAAACTGTGGTGTTTGAAGGACTTTT
TGAGTTGGGCCATATAGAGTTGATGGATATTAATGCGGAACAGCATATTGGCTTTGTACA
AGCTCAAGGAACGATTAAGAATGGTGAAAGACACAGTACAGCTAAAGCCTTCCTCTTGCC
AATCAAAGAACGAGAGAATTTACATATTGTGAAAAACGCTTTTGTTACATCTTTAATTAT
CGAAGATAAAACAGTTAAAGGCATAAACTTTGAGATTAATGGAGAGAAATTAAAAGCTTT
TACTAAGAAAGAAGTAATTTTATCAGCTGGTACTGTAAATTCCCCAAAAATACTGATGCA
ATCAGGAATTGGAATTGCTGACGATTTGAAAAAGCTTGATATTCCTGTAGTACATGAATT
GCCAATAGGAAAAAATTTACAAGATCATGTAATGGTTTTTTACAATTTTAAATACCATGA
ATCAAGAGCAAGAGATCATTCGCCTCAAGAAGTGGCAGATATGCTTTTCTCCTTTTTAAA
ACATCGCGTTGGAAAAATGACTGGAACAATGTGTTCTGATATGGTAGGATTTATCAATAC
ATTAGATAAAGAAGCCAAATATCCAGATATTCAATATTTGCATCTTTGTCAATATAAAAA
A

>g2978.t3 Gene=g2978 Length=274
MLYIRGNPRDFNSWNLTGWKWDDVLPYYKKSESNQHEWLFELTQDRFHNKDGLLSVDGYN
SIETIKTVVFEGLFELGHIELMDINAEQHIGFVQAQGTIKNGERHSTAKAFLLPIKEREN
LHIVKNAFVTSLIIEDKTVKGINFEINGEKLKAFTKKEVILSAGTVNSPKILMQSGIGIA
DDLKKLDIPVVHELPIGKNLQDHVMVFYNFKYHESRARDHSPQEVADMLFSFLKHRVGKM
TGTMCSDMVGFINTLDKEAKYPDIQYLHLCQYKK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g2978.t3 Gene3D G3DSA:3.50.50.60 - 1 69 1.4E-9
6 g2978.t3 Gene3D G3DSA:3.50.50.60 - 80 267 9.7E-37
2 g2978.t3 PANTHER PTHR11552:SF217 GLUCOSE DEHYDROGENASE [FAD, QUINONE] 1 267 1.7E-73
3 g2978.t3 PANTHER PTHR11552 GLUCOSE-METHANOL-CHOLINE GMC OXIDOREDUCTASE 1 267 1.7E-73
1 g2978.t3 Pfam PF00732 GMC oxidoreductase 1 204 1.5E-43
5 g2978.t3 ProSitePatterns PS00624 GMC oxidoreductases signature 2. 164 178 -
4 g2978.t3 SUPERFAMILY SSF51905 FAD/NAD(P)-binding domain 1 225 9.58E-35

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