Gene loci information

Transcript annotation

  • This transcript has been annotated as Trans-1-2-dihydrobenzene-1,2-diol 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_4 g15457 g15457.t24 TTS g15457.t24 5519529 5519529
chr_4 g15457 g15457.t24 isoform g15457.t24 5519531 5521775
chr_4 g15457 g15457.t24 exon g15457.t24.exon1 5519531 5520098
chr_4 g15457 g15457.t24 cds g15457.t24.CDS1 5519841 5520098
chr_4 g15457 g15457.t24 exon g15457.t24.exon2 5520159 5520405
chr_4 g15457 g15457.t24 cds g15457.t24.CDS2 5520159 5520405
chr_4 g15457 g15457.t24 exon g15457.t24.exon3 5520464 5520755
chr_4 g15457 g15457.t24 cds g15457.t24.CDS3 5520464 5520755
chr_4 g15457 g15457.t24 exon g15457.t24.exon4 5521571 5521693
chr_4 g15457 g15457.t24 cds g15457.t24.CDS4 5521571 5521693
chr_4 g15457 g15457.t24 exon g15457.t24.exon5 5521742 5521775
chr_4 g15457 g15457.t24 cds g15457.t24.CDS5 5521742 5521775
chr_4 g15457 g15457.t24 TSS g15457.t24 5521865 5521865

Sequences

>g15457.t24 Gene=g15457 Length=1264
ATGGCACCATTACGTTGGGGAATTGCATCAGCTGATGATCATCAGGTCGTCGCGGTTGCG
GCTCGCTCATTGGAGGATGCAAAGGAATTTGCAGAAACATTCAATATTCCTAGGACTCAT
GAAGGTTACCAAAAATTAGCTCAGGATCCAGAAGTTGATGTTGTTTATATTGGATCTATT
AATACCACACATCTTGAAATTGGTTTAATGATGTTGGATGGTGGCAAACATATTCTTTGT
GAAAAGCCTTTGACATTAAATGTAAAACAAGCTGAACAACTTTTAAATCATGCAAAAGAG
AAGAAATTATTTTGTATGGAAGCAATTTGGTCAAGATATTTTCCAATTTATAGACAACTT
AAAGCTCGTATTAACAATGGTGATCTTGGTGACATTAAAGAAGTTTATGCTGAATTTGGT
GTTGAAATGGCAGATGTTGATCGTGTAATGAAAAATGAACTTGGAGGTGGTTCCACATTG
GATATTGGAACCTATGCAATTCAATTTTCTCAATTTGTCTTTCGTGCTGAACCGACATCA
ATTAAAGCAACTGGCAAATTAAATGAAGAAGGTGTTGATACTGAAACTGAAGTTGAATTA
AAATATCCAAATGGTGGTGTTGCTCGTTATAAGACTAATTCAACAAAAGAACTCAGCAAC
ATTGCAACTGTAACAGGAAGCAAAGGCACAATGAAGCTCCATACTTTCTGGTGTCCAACT
GAATTAGAAGATGTTGATGGTCAAATGAAAAAATTCGAATTACCACAAAATCGACTTGGT
AAATTTATTTACTTCCATGGTGCTGGCATGCGATATGAAGCAGAAGAAGTAAGAAGATGC
ATCAATGAAGGTTTGACTGAAAGTGAAGATGCAACACATAATGACAGTCTTGTCATTGCT
CGTATTCGTGATGAAATTCGTAGACAACTTGGTGTTAAATTTGATGAAGACTGAAATTTA
ATGGAAACTAAATTATGAAATGGATCTCTTGAAATGTGACATGATAAGCAAAGAAATAAG
AAAATTGTTAGTTTTGTATAAATATTGAATTATGAGGAAGAGAAGAAATACCAAAAATGT
CCCAAAAAATTAATATATTTCATAATATCCGAACGAAATTTTTTTCATTCCTGTAATATT
TTGTTTGGTTATATTTAATTATTTGAACGTCGATATATTTTTAAGTTTTATTTTAATCTA
TTATTTTGTATGCACGAATGAAATTCATTTATCATAACAATAAAATAAAATTACATATTT
TGCA

>g15457.t24 Gene=g15457 Length=317
MAPLRWGIASADDHQVVAVAARSLEDAKEFAETFNIPRTHEGYQKLAQDPEVDVVYIGSI
NTTHLEIGLMMLDGGKHILCEKPLTLNVKQAEQLLNHAKEKKLFCMEAIWSRYFPIYRQL
KARINNGDLGDIKEVYAEFGVEMADVDRVMKNELGGGSTLDIGTYAIQFSQFVFRAEPTS
IKATGKLNEEGVDTETEVELKYPNGGVARYKTNSTKELSNIATVTGSKGTMKLHTFWCPT
ELEDVDGQMKKFELPQNRLGKFIYFHGAGMRYEAEEVRRCINEGLTESEDATHNDSLVIA
RIRDEIRRQLGVKFDED

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g15457.t24 Gene3D G3DSA:3.40.50.720 - 6 106 0
8 g15457.t24 Gene3D G3DSA:3.30.360.10 Dihydrodipicolinate Reductase; domain 2 108 317 0
3 g15457.t24 PANTHER PTHR22604 OXIDOREDUCTASES 11 315 0
4 g15457.t24 PANTHER PTHR22604:SF105 TRANS-1,2-DIHYDROBENZENE-1,2-DIOL DEHYDROGENASE 11 315 0
1 g15457.t24 Pfam PF01408 Oxidoreductase family, NAD-binding Rossmann fold 9 105 0
2 g15457.t24 Pfam PF02894 Oxidoreductase family, C-terminal alpha/beta domain 121 280 0
5 g15457.t24 SUPERFAMILY SSF51735 NAD(P)-binding Rossmann-fold domains 8 140 0
6 g15457.t24 SUPERFAMILY SSF55347 Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain 114 282 0

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: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