Gene loci information

Transcript annotation

  • This transcript has been annotated as 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.t1 TSS g2978.t1 21694245 21694245
chr_3 g2978 g2978.t1 isoform g2978.t1 21694320 21698470
chr_3 g2978 g2978.t1 exon g2978.t1.exon1 21694320 21694518
chr_3 g2978 g2978.t1 cds g2978.t1.CDS1 21694320 21694518
chr_3 g2978 g2978.t1 exon g2978.t1.exon2 21694575 21694669
chr_3 g2978 g2978.t1 cds g2978.t1.CDS2 21694575 21694669
chr_3 g2978 g2978.t1 exon g2978.t1.exon3 21694956 21695140
chr_3 g2978 g2978.t1 cds g2978.t1.CDS3 21694956 21695140
chr_3 g2978 g2978.t1 exon g2978.t1.exon4 21695199 21696501
chr_3 g2978 g2978.t1 cds g2978.t1.CDS4 21695199 21696501
chr_3 g2978 g2978.t1 exon g2978.t1.exon5 21696845 21696972
chr_3 g2978 g2978.t1 cds g2978.t1.CDS5 21696845 21696972
chr_3 g2978 g2978.t1 exon g2978.t1.exon6 21697033 21698470
chr_3 g2978 g2978.t1 cds g2978.t1.CDS6 21697033 21698470
chr_3 g2978 g2978.t1 TTS g2978.t1 21698549 21698549

Sequences

>g2978.t1 Gene=g2978 Length=3348
ATGGAATTTATTCCACAAACATGTGCCGCGACAAGTGTCGGTGCTGCAAATGGAATGTTT
AATTTATTGTTCCAAACTCTGTTAGCAGCACACTGTTCAATTTCACCACCTGATAAATGG
CCAAAAGACTATGGACCTACAGCGATTAAAGAAGGTTTAGAAGAGTATGATTTTATAATT
GTTGGTGCTGGAAGTGCAGGAAGCGTCTTAGCAAATCGTCTCACTGAAAATAAAGATTGG
AAAGTACTGCTCGTTGAAGCTGGTGGAGATCCGCCAATTGAGAGTGAGGCAAGTGTACCG
GCAAATTACCATTTACTACAAAAAACTGAATACGATTGGCAATATTATTTGGAGAAATCT
GATAAAGCAAGTTTAGGGATGCCAAATGGTTGTTATTGGCCACGTGGTAAAGTATTGGGT
GGAAGCAGTGCCATAAACGCTCTACTTTATGTTCGTGGAAATCGTGCGGATTATGATGAA
TGGGAGGAATTGGGAAATAAAGGATGGAAATTTAGAGACGTATTAAAATATTTCAAGAAA
GCTGAAAATAATTCAGTATCACAAGAAGATGAGAATTGGGCAAAAATGCATGGAAAAGAA
GGTCCACTTTATGTTGATTATTTCTTTAGTTATGATCCCATAAAAGATATGTTGACACAA
GCTGCAAGTGAAATAAATATGGATTTTACAGAAAATGTAAATGGTGAATCACAAATGGGC
TATTCAATAGTTCAAGGAACAATAAAACGTGGCATTAGACAAAGTACAGCAACTGCTTAC
ATTTTACCAATCGCAGATAGACCAAATTTACATATCATCAAGCATGCTCAAGTAACAAAA
TTAATAATCAACGATAAAGGACTTGCTGAAGGCATTCATTTTGTATTAAATGGCAAAAAG
ATGAAAGCTAAAGCCAATTTTGAAGTCATTTTATCAGCAGGTTCTATTGGCAGTCCGCAA
ATTCTATTAAACTCTGGCATTGGCCCAAAAGAACATTTGAAAGAAATCGGAATTAAAGTG
AAACATGATTTGCAAGGTGTAGGAAAGAACTTACAAGATCACAATGTCGTTTTTGTTCCA
ATAAAACTTCACAAATCTTGGGCACGACTTATGACTGATTCAGATTGGGTTGATGATGCA
TACCATTACTTTATGCATGGTGTCGGAAGTCCAAGTCATGTTGGAGTGACTGATTTAACA
ATGTTTCATAACACACGCAACGCTTCAAGCTCAATTCCTGACATTCAACTTCACTTTTTC
CAATATAGAAGAGGCGAAGAAAAACGATTGCGAAAAGTTCTAGAAAATTATGGTTATGAT
GAGAAAATCAATGAATCAATTTTAAGTGGAATAAAACGTTCTGAATTATTGATGGTAATG
ATTGTACTTTTACGGCCAGAATCTAAAGGCAAAATTGAGTTAAGAAGCAAGGATCCACTT
GATAAGCCAAAAATCTATGGAAATTATCTTGACAAAAAAGAAGATGTCGAAACAATGATT
CGAGGCGTGAGTTTACTCAAGAGGTTAATGCAAACAAACGTTACGAGGGAGCATGAATGC
TTCTTCATCAAAGTCAACATCACCGGATGTGAACACATTGAATTCGATAAACCTGGCTAT
TGGGAGTGTTATGTAAGACATATGACAAGCACTGTCTATCATCCGACAAGTACTGTGAAA
ATGGGTCCAGACAGCGATGCTGAAGCAGTTGTAGATAGTGAATTAAAAGTCAGAGGAATA
AAAGGTTTGCGTGTGATAGATGCGAGCATTATGCCAAACATCGTGCCATATTTGTTTCTT
TCAACATTAAACACTAGTCATACATGGAATCATTTTGCAGAGAAATCAGACAAAGCAAGT
AAAGCCTTTGCAAAAGGGAGCTTTTGGCCAAGTGGAAAAACGCTTGGAGGATCAAGTGCT
GTTAATGCAATGCTCTATATTCGAGGTAATCCACGTGATTTTAATTCATGGAATTTAACA
GGATGGAAATGGGATGACGTTTTACCTTATTACAAAAAGTCTGAATCAAATCAGCATGAG
TGGCTGTTTGAATTGACACAAGATAGATTTCATAATAAAGATGGTTTGCTGTCTGTTGAT
GGATATAATAGTATAGAGACGATTAAAACTGTGGTGTTTGAAGGACTTTTTGAGTTGGGC
CATATAGAGTTGATGGATATTAATGCGGAACAGCATATTGGCTTTGTACAAGCTCAAGGA
ACGATTAAGAATGGTGAAAGACACAGTACAGCTAAAGCCTTCCTCTTGCCAATCAAAGAA
CGAGAGAATTTACATATTGTGAAAAACGCTTTTGTTACATCTTTAATTATCGAAGATAAA
ACAGTTAAAGGCATAAACTTTGAGATTAATGGAGAGAAATTAAAAGCTTTTACTAAGAAA
GAAGTAATTTTATCAGCTGGTACTGTAAATTCCCCAAAAATACTGATGCAATCAGGAATT
GGAATTGCTGACGATTTGAAAAAGCTTGATATTCCTGTAGTACATGAATTGCCAATAGGA
AAAAATTTACAAGATCATGTAATGGTTTTTTACAATTTTAAATACCATGAATCAAGAGCA
AGAGATCATTCGCCTCAAGAAGTGGCAGATATGCTTTTCTCCTTTTTAAAACATCGCGTT
GGAAAAATGACTGGAACAATGTGTTCTGATATGGTAGGATTTATCAATACATTAGATAAA
GAAGCCAAATATCCAGATATTCAATATTTGCATCTTTGTCAATATAAAAAAATGATTGGC
TATCCTGAGATTCTTAAGAACTTTGGTTTTAAAGACGAATTTGCTTCTCAATACATTGAA
GCTAATAAAAAATCACCCACACTTCAATTTGTTATTACTCTATTAAATCCAAAATCACGT
GGATATATAAAATTACGTAGCAATAATCCATACGATGCACCAATAATCAATCCTAATTAT
CTTGACGAAAGTGACGATGTCGAAACGCTATTGAGGGGATTGAAAGAATATAGAAAGCTA
TTGGACACGAATGATTTTAAACTTCACGAAGTATCAGAGTTGAAATTTGATATCCCAGAG
TGCGATAAACTTGAATATGCAACTGACGATTACTGGCGCTGTTTCATTTCTTATTTCTCA
TCTACACTCTATCATCCTGTTGGTACATGTAAAATGGGAAATGACGAAAGTGCTGTTGTT
GATCTATCACTTAAAGTAAAAGGAATCAAGGGACTTAGAGTGATTGATGCAAGTGTTATG
CCAACAATCGTTAGCGCAAACACCAATCCAACAGTGATCATGATTGCTGAAAAGGGAGCA
GATTTGATAAAGGCCGACTGGATCGAGCTTGAAACAAAAGACAGTTGA

>g2978.t1 Gene=g2978 Length=1115
MEFIPQTCAATSVGAANGMFNLLFQTLLAAHCSISPPDKWPKDYGPTAIKEGLEEYDFII
VGAGSAGSVLANRLTENKDWKVLLVEAGGDPPIESEASVPANYHLLQKTEYDWQYYLEKS
DKASLGMPNGCYWPRGKVLGGSSAINALLYVRGNRADYDEWEELGNKGWKFRDVLKYFKK
AENNSVSQEDENWAKMHGKEGPLYVDYFFSYDPIKDMLTQAASEINMDFTENVNGESQMG
YSIVQGTIKRGIRQSTATAYILPIADRPNLHIIKHAQVTKLIINDKGLAEGIHFVLNGKK
MKAKANFEVILSAGSIGSPQILLNSGIGPKEHLKEIGIKVKHDLQGVGKNLQDHNVVFVP
IKLHKSWARLMTDSDWVDDAYHYFMHGVGSPSHVGVTDLTMFHNTRNASSSIPDIQLHFF
QYRRGEEKRLRKVLENYGYDEKINESILSGIKRSELLMVMIVLLRPESKGKIELRSKDPL
DKPKIYGNYLDKKEDVETMIRGVSLLKRLMQTNVTREHECFFIKVNITGCEHIEFDKPGY
WECYVRHMTSTVYHPTSTVKMGPDSDAEAVVDSELKVRGIKGLRVIDASIMPNIVPYLFL
STLNTSHTWNHFAEKSDKASKAFAKGSFWPSGKTLGGSSAVNAMLYIRGNPRDFNSWNLT
GWKWDDVLPYYKKSESNQHEWLFELTQDRFHNKDGLLSVDGYNSIETIKTVVFEGLFELG
HIELMDINAEQHIGFVQAQGTIKNGERHSTAKAFLLPIKERENLHIVKNAFVTSLIIEDK
TVKGINFEINGEKLKAFTKKEVILSAGTVNSPKILMQSGIGIADDLKKLDIPVVHELPIG
KNLQDHVMVFYNFKYHESRARDHSPQEVADMLFSFLKHRVGKMTGTMCSDMVGFINTLDK
EAKYPDIQYLHLCQYKKMIGYPEILKNFGFKDEFASQYIEANKKSPTLQFVITLLNPKSR
GYIKLRSNNPYDAPIINPNYLDESDDVETLLRGLKEYRKLLDTNDFKLHEVSELKFDIPE
CDKLEYATDDYWRCFISYFSSTLYHPVGTCKMGNDESAVVDLSLKVKGIKGLRVIDASVM
PTIVSANTNPTVIMIAEKGADLIKADWIELETKDS

Protein features from InterProScan

Transcript Database ID Name Start End E.value
16 g2978.t1 Gene3D G3DSA:3.50.50.60 - 56 596 2.1E-165
18 g2978.t1 Gene3D G3DSA:3.30.560.10 Glucose Oxidase 95 553 2.1E-165
17 g2978.t1 Gene3D G3DSA:3.30.560.10 Glucose Oxidase 597 1044 5.2E-141
15 g2978.t1 Gene3D G3DSA:3.50.50.60 - 631 1104 5.2E-141
5 g2978.t1 PANTHER PTHR11552 GLUCOSE-METHANOL-CHOLINE GMC OXIDOREDUCTASE 22 595 0.0
6 g2978.t1 PANTHER PTHR11552 GLUCOSE-METHANOL-CHOLINE GMC OXIDOREDUCTASE 595 1104 0.0
2 g2978.t1 Pfam PF00732 GMC oxidoreductase 56 355 5.2E-78
4 g2978.t1 Pfam PF05199 GMC oxidoreductase 466 595 3.3E-30
1 g2978.t1 Pfam PF00732 GMC oxidoreductase 624 847 1.1E-53
3 g2978.t1 Pfam PF05199 GMC oxidoreductase 957 1098 2.0E-40
14 g2978.t1 ProSitePatterns PS00623 GMC oxidoreductases signature 1. 136 159 -
11 g2978.t1 ProSitePatterns PS00624 GMC oxidoreductases signature 2. 314 328 -
13 g2978.t1 ProSitePatterns PS00623 GMC oxidoreductases signature 1. 632 655 -
12 g2978.t1 ProSitePatterns PS00624 GMC oxidoreductases signature 2. 807 821 -
10 g2978.t1 SUPERFAMILY SSF51905 FAD/NAD(P)-binding domain 54 611 2.59E-72
7 g2978.t1 SUPERFAMILY SSF54373 FAD-linked reductases, C-terminal domain 396 558 1.57E-30
9 g2978.t1 SUPERFAMILY SSF51905 FAD/NAD(P)-binding domain 627 1107 1.78E-59
8 g2978.t1 SUPERFAMILY SSF54373 FAD-linked reductases, C-terminal domain 842 1049 5.79E-36

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.

Raw TPM values