General information for g2978.t6
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Glucose dehydrogenase.
Parent gene
- The parent gene g2978 is located on chr_3: 21696845..21698470 (+ strand)
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.t6 | isoform | g2978.t6 | 21696845 | 21697873 |
| chr_3 | g2978 | g2978.t6 | exon | g2978.t6.exon1 | 21696845 | 21696972 |
| chr_3 | g2978 | g2978.t6 | exon | g2978.t6.exon2 | 21697033 | 21697873 |
| chr_3 | g2978 | g2978.t6 | cds | g2978.t6.CDS1 | 21697052 | 21697873 |
| chr_3 | g2978 | g2978.t6 | TTS | g2978.t6 | 21698549 | 21698549 |
| chr_3 | g2978 | g2978.t6 | TSS | g2978.t6 | NA | NA |
Sequences
>g2978.t6 Gene=g2978 Length=969
GTGCCATATTTGTTTCTTTCAACATTAAACACTAGTCATACATGGAATCATTTTGCAGAG
AAATCAGACAAAGCAAGTAAAGCCTTTGCAAAAGGGAGCTTTTGGCCAAGTGGAAAAACG
CTTGGAGGATCAAGTGCTGTTAATGCAATGCTCTATATTCGAGGTAATCCACGTGATTTT
AATTCATGGAATTTAACAGGATGGAAATGGGATGACGTTTTACCTTATTACAAAAAGTCT
GAATCAAATCAGCATGAGTGGCTGTTTGAATTGACACAAGATAGATTTCATAATAAAGAT
GGTTTGCTGTCTGTTGATGGATATAATAGTATAGAGACGATTAAAACTGTGGTGTTTGAA
GGACTTTTTGAGTTGGGCCATATAGAGTTGATGGATATTAATGCGGAACAGCATATTGGC
TTTGTACAAGCTCAAGGAACGATTAAGAATGGTGAAAGACACAGTACAGCTAAAGCCTTC
CTCTTGCCAATCAAAGAACGAGAGAATTTACATATTGTGAAAAACGCTTTTGTTACATCT
TTAATTATCGAAGATAAAACAGTTAAAGGCATAAACTTTGAGATTAATGGAGAGAAATTA
AAAGCTTTTACTAAGAAAGAAGTAATTTTATCAGCTGGTACTGTAAATTCCCCAAAAATA
CTGATGCAATCAGGAATTGGAATTGCTGACGATTTGAAAAAGCTTGATATTCCTGTAGTA
CATGAATTGCCAATAGGAAAAAATTTACAAGATCATGTAATGGTTTTTTACAATTTTAAA
TACCATGAATCAAGAGCAAGAGATCATTCGCCTCAAGAAGTGGCAGATATGCTTTTCTCC
TTTTTAAAACATCGCGTTGGAAAAATGACTGGAACAATGTGTTCTGATATGGTAGGATTT
ATCAATACATTAGATAAAGAAGCCAAATATCCAGATATTCAATATTTGCATCTTTGTCAA
TATAAAAAA
>g2978.t6 Gene=g2978 Length=274
MLYIRGNPRDFNSWNLTGWKWDDVLPYYKKSESNQHEWLFELTQDRFHNKDGLLSVDGYN
SIETIKTVVFEGLFELGHIELMDINAEQHIGFVQAQGTIKNGERHSTAKAFLLPIKEREN
LHIVKNAFVTSLIIEDKTVKGINFEINGEKLKAFTKKEVILSAGTVNSPKILMQSGIGIA
DDLKKLDIPVVHELPIGKNLQDHVMVFYNFKYHESRARDHSPQEVADMLFSFLKHRVGKM
TGTMCSDMVGFINTLDKEAKYPDIQYLHLCQYKK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g2978.t6 | Gene3D | G3DSA:3.50.50.60 | - | 1 | 69 | 1.4E-9 |
| 6 | g2978.t6 | Gene3D | G3DSA:3.50.50.60 | - | 80 | 267 | 9.7E-37 |
| 2 | g2978.t6 | PANTHER | PTHR11552:SF217 | GLUCOSE DEHYDROGENASE [FAD, QUINONE] | 1 | 267 | 1.7E-73 |
| 3 | g2978.t6 | PANTHER | PTHR11552 | GLUCOSE-METHANOL-CHOLINE GMC OXIDOREDUCTASE | 1 | 267 | 1.7E-73 |
| 1 | g2978.t6 | Pfam | PF00732 | GMC oxidoreductase | 1 | 204 | 1.5E-43 |
| 5 | g2978.t6 | ProSitePatterns | PS00624 | GMC oxidoreductases signature 2. | 164 | 178 | - |
| 4 | g2978.t6 | 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