Gene loci information

Transcript annotation

  • This transcript has been annotated as Alcohol dehydrogenase class-3.

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_1 g14023 g14023.t22 TTS g14023.t22 34102731 34102731
chr_1 g14023 g14023.t22 isoform g14023.t22 34103417 34104511
chr_1 g14023 g14023.t22 exon g14023.t22.exon1 34103417 34103655
chr_1 g14023 g14023.t22 cds g14023.t22.CDS1 34103417 34103655
chr_1 g14023 g14023.t22 exon g14023.t22.exon2 34103722 34103781
chr_1 g14023 g14023.t22 cds g14023.t22.CDS2 34103722 34103781
chr_1 g14023 g14023.t22 exon g14023.t22.exon3 34103850 34104179
chr_1 g14023 g14023.t22 cds g14023.t22.CDS3 34103850 34104179
chr_1 g14023 g14023.t22 exon g14023.t22.exon4 34104242 34104314
chr_1 g14023 g14023.t22 cds g14023.t22.CDS4 34104242 34104314
chr_1 g14023 g14023.t22 exon g14023.t22.exon5 34104377 34104511
chr_1 g14023 g14023.t22 cds g14023.t22.CDS5 34104377 34104511
chr_1 g14023 g14023.t22 TSS g14023.t22 34104576 34104576

Sequences

>g14023.t22 Gene=g14023 Length=837
ATGACTGAAGGGAAAGTAATTAGTTGTCGTGCAGCTGTTGCTTGGGAAGCTAACAAGCCA
TTGTCAATCGAAGAAATTCAAGTTCAACCACCAAAATCTGGTGAAGTTCGAGTAAAAATT
TTTGCAACCGGTGTTTGTCATACTGACGCATATACACTAAGTGGAATTGATCCAGAAGGA
CTTTTTCCGAGCATTCTTGGTCATGAAGGCGCTGGAATTGTGGAATCAGTTGGTGAAGGT
GTAACAAATTTTAAGGCAGGCGACCATGTTATTCCTCTTTATACACCACAATGCAAAGAG
TGTCAATATTGCAAAAGCAAAAAGACAAATTTGTGTCAAAAAATCCGCTTAACTCAAGGT
AAAGGTGTAATGCCAGATGGCACTTCACGTTTTACATGCAAAGACAAGCAATTATATCAT
TTTATGGGCTGCTCTACATTCTCTGAGTATACTGTCGTTAGTCAAATTTCTTTGTGCAAA
GTTGCCGAGTCTGCACCTCTTGAAAAAATATGCCTTCTCGGATGTGGCATACCAACCGGC
TATGGAGCTGCAGTTAATACAGCAGGTGTTGAAGAAGGAAGTGTTGTCGCCATTTGGGGT
CTTGGTGCAGTCGGTCTTGCTGTAATTGCAGGATGCAAAGATTTAAAAGCTAAGACAATC
ATTGGAATTGATATAAATGAATCTAAATTTGAAATAGCAAAATCCTTTGGTGTAACTGAC
TTCGTCAATCCAAAAAAATTGCCTGAAGGAAAAACAATTCAGGAATATCTTTTTGACAAT
TTTGATGGAGGTCCTGATTATACGTTTGAATGCATTGGAAATGTTCAAACAATGAGA

>g14023.t22 Gene=g14023 Length=279
MTEGKVISCRAAVAWEANKPLSIEEIQVQPPKSGEVRVKIFATGVCHTDAYTLSGIDPEG
LFPSILGHEGAGIVESVGEGVTNFKAGDHVIPLYTPQCKECQYCKSKKTNLCQKIRLTQG
KGVMPDGTSRFTCKDKQLYHFMGCSTFSEYTVVSQISLCKVAESAPLEKICLLGCGIPTG
YGAAVNTAGVEEGSVVAIWGLGAVGLAVIAGCKDLKAKTIIGIDINESKFEIAKSFGVTD
FVNPKKLPEGKTIQEYLFDNFDGGPDYTFECIGNVQTMR

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g14023.t22 Gene3D G3DSA:3.90.180.10 - 4 191 4.9E-59
8 g14023.t22 Gene3D G3DSA:3.40.50.720 - 192 279 2.1E-21
3 g14023.t22 PANTHER PTHR43880:SF21 S-(HYDROXYMETHYL)GLUTATHIONE DEHYDROGENASE 3 279 3.8E-141
4 g14023.t22 PANTHER PTHR43880 ALCOHOL DEHYDROGENASE 3 279 3.8E-141
2 g14023.t22 Pfam PF08240 Alcohol dehydrogenase GroES-like domain 34 160 1.8E-24
1 g14023.t22 Pfam PF00107 Zinc-binding dehydrogenase 203 278 6.2E-13
7 g14023.t22 ProSitePatterns PS00059 Zinc-containing alcohol dehydrogenases signature. 67 81 -
6 g14023.t22 SUPERFAMILY SSF50129 GroES-like 2 184 5.33E-77
5 g14023.t22 SUPERFAMILY SSF51735 NAD(P)-binding Rossmann-fold domains 166 278 3.42E-29

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:0008270 zinc ion binding MF
GO:0055114 NA NA
GO:0016491 oxidoreductase activity MF

KEGG

Orthology

Pathway

  • This transcript belongs to the following pathways

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