General information for g2978.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as 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.t4 | TSS | g2978.t4 | 21694245 | 21694245 |
| chr_3 | g2978 | g2978.t4 | isoform | g2978.t4 | 21694960 | 21696843 |
| chr_3 | g2978 | g2978.t4 | exon | g2978.t4.exon1 | 21694960 | 21695140 |
| chr_3 | g2978 | g2978.t4 | cds | g2978.t4.CDS1 | 21695040 | 21695140 |
| chr_3 | g2978 | g2978.t4 | exon | g2978.t4.exon2 | 21695199 | 21696843 |
| chr_3 | g2978 | g2978.t4 | cds | g2978.t4.CDS2 | 21695199 | 21696615 |
| chr_3 | g2978 | g2978.t4 | TTS | g2978.t4 | NA | NA |
Sequences
>g2978.t4 Gene=g2978 Length=1826
CGGCAAATTACCATTTACTACAAAAAACTGAATACGATTGGCAATATTATTTGGAGAAAT
CTGATAAAGCAAGTTTAGGGATGCCAAATGGTTGTTATTGGCCACGTGGTAAAGTATTGG
GTGGAAGCAGTGCCATAAACGCTCTACTTTATGTTCGTGGAAATCGTGCGGATTATGATG
AATGGGAGGAATTGGGAAATAAAGGATGGAAATTTAGAGACGTATTAAAATATTTCAAGA
AAGCTGAAAATAATTCAGTATCACAAGAAGATGAGAATTGGGCAAAAATGCATGGAAAAG
AAGGTCCACTTTATGTTGATTATTTCTTTAGTTATGATCCCATAAAAGATATGTTGACAC
AAGCTGCAAGTGAAATAAATATGGATTTTACAGAAAATGTAAATGGTGAATCACAAATGG
GCTATTCAATAGTTCAAGGAACAATAAAACGTGGCATTAGACAAAGTACAGCAACTGCTT
ACATTTTACCAATCGCAGATAGACCAAATTTACATATCATCAAGCATGCTCAAGTAACAA
AATTAATAATCAACGATAAAGGACTTGCTGAAGGCATTCATTTTGTATTAAATGGCAAAA
AGATGAAAGCTAAAGCCAATTTTGAAGTCATTTTATCAGCAGGTTCTATTGGCAGTCCGC
AAATTCTATTAAACTCTGGCATTGGCCCAAAAGAACATTTGAAAGAAATCGGAATTAAAG
TGAAACATGATTTGCAAGGTGTAGGAAAGAACTTACAAGATCACAATGTCGTTTTTGTTC
CAATAAAACTTCACAAATCTTGGGCACGACTTATGACTGATTCAGATTGGGTTGATGATG
CATACCATTACTTTATGCATGGTGTCGGAAGTCCAAGTCATGTTGGAGTGACTGATTTAA
CAATGTTTCATAACACACGCAACGCTTCAAGCTCAATTCCTGACATTCAACTTCACTTTT
TCCAATATAGAAGAGGCGAAGAAAAACGATTGCGAAAAGTTCTAGAAAATTATGGTTATG
ATGAGAAAATCAATGAATCAATTTTAAGTGGAATAAAACGTTCTGAATTATTGATGGTAA
TGATTGTACTTTTACGGCCAGAATCTAAAGGCAAAATTGAGTTAAGAAGCAAGGATCCAC
TTGATAAGCCAAAAATCTATGGAAATTATCTTGACAAAAAAGAAGATGTCGAAACAATGA
TTCGAGGCGTGAGTTTACTCAAGAGGTTAATGCAAACAAACGTTACGAGGGAGCATGAAT
GCTTCTTCATCAAAGTCAACATCACCGGATGTGAACACATTGAATTCGATAAACCTGGCT
ATTGGGAGTGTTATGTAAGACATATGACAAGCACTGTCTATCATCCGACAAGTACTGTGA
AAATGGGTCCAGACAGCGATGCTGAAGCAGTTGTAGATAGTGAATTAAAAGTCAGAGGAA
TAAAAGGTTTGCGTGTGATAGATGCGAGCATTATGCCAAACATCGTAAGAGGAAATACAA
ACGCTCCGACTATCATGATTGCGGAAAAAGGTGCAGATATGATAAAACAATACTGGAAGA
TACCAAACGCTTCAAAGAAACCAAAAACTGAGTTGTAAAAAAATGATTACATTAGTGCAA
AAAAATCTAAAATTAAGATACATTACATATGAACGCACACACGCTTCAAAGAGCGATTGT
GAGCAATTTATCATGAAATTTTAATAAATAACACTTGCACAATATACAAACATTGCTTTT
GACAGAGATTTTGACTATAATTCCTTTTTCACTGAAAACGTCACTTAAATCATAATAATT
TTGAATTTCATTTCGATTATTTAACA
>g2978.t4 Gene=g2978 Length=505
MPNGCYWPRGKVLGGSSAINALLYVRGNRADYDEWEELGNKGWKFRDVLKYFKKAENNSV
SQEDENWAKMHGKEGPLYVDYFFSYDPIKDMLTQAASEINMDFTENVNGESQMGYSIVQG
TIKRGIRQSTATAYILPIADRPNLHIIKHAQVTKLIINDKGLAEGIHFVLNGKKMKAKAN
FEVILSAGSIGSPQILLNSGIGPKEHLKEIGIKVKHDLQGVGKNLQDHNVVFVPIKLHKS
WARLMTDSDWVDDAYHYFMHGVGSPSHVGVTDLTMFHNTRNASSSIPDIQLHFFQYRRGE
EKRLRKVLENYGYDEKINESILSGIKRSELLMVMIVLLRPESKGKIELRSKDPLDKPKIY
GNYLDKKEDVETMIRGVSLLKRLMQTNVTREHECFFIKVNITGCEHIEFDKPGYWECYVR
HMTSTVYHPTSTVKMGPDSDAEAVVDSELKVRGIKGLRVIDASIMPNIVRGNTNAPTIMI
AEKGADMIKQYWKIPNASKKPKTEL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g2978.t4 | Gene3D | G3DSA:3.30.560.10 | Glucose Oxidase | 4 | 427 | 1.2E-149 |
| 8 | g2978.t4 | Gene3D | G3DSA:3.50.50.60 | - | 9 | 489 | 1.2E-149 |
| 3 | g2978.t4 | PANTHER | PTHR11552 | GLUCOSE-METHANOL-CHOLINE GMC OXIDOREDUCTASE | 4 | 489 | 1.0E-161 |
| 10 | g2978.t4 | PIRSF | PIRSF000137 | Alcohol_oxidase | 2 | 499 | 1.8E-133 |
| 1 | g2978.t4 | Pfam | PF00732 | GMC oxidoreductase | 5 | 229 | 9.7E-64 |
| 2 | g2978.t4 | Pfam | PF05199 | GMC oxidoreductase | 340 | 483 | 5.7E-37 |
| 7 | g2978.t4 | ProSitePatterns | PS00623 | GMC oxidoreductases signature 1. | 10 | 33 | - |
| 6 | g2978.t4 | ProSitePatterns | PS00624 | GMC oxidoreductases signature 2. | 188 | 202 | - |
| 5 | g2978.t4 | SUPERFAMILY | SSF51905 | FAD/NAD(P)-binding domain | 4 | 493 | 5.18E-64 |
| 4 | g2978.t4 | SUPERFAMILY | SSF54373 | FAD-linked reductases, C-terminal domain | 270 | 432 | 3.92E-31 |
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