Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative 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.t27 TTS g15457.t27 5519529 5519529
chr_4 g15457 g15457.t27 isoform g15457.t27 5519531 5521775
chr_4 g15457 g15457.t27 exon g15457.t27.exon1 5519531 5520098
chr_4 g15457 g15457.t27 exon g15457.t27.exon2 5520159 5520413
chr_4 g15457 g15457.t27 cds g15457.t27.CDS1 5520406 5520413
chr_4 g15457 g15457.t27 exon g15457.t27.exon3 5520471 5520755
chr_4 g15457 g15457.t27 cds g15457.t27.CDS2 5520471 5520755
chr_4 g15457 g15457.t27 exon g15457.t27.exon4 5521571 5521775
chr_4 g15457 g15457.t27 cds g15457.t27.CDS3 5521571 5521775
chr_4 g15457 g15457.t27 TSS g15457.t27 5521865 5521865

Sequences

>g15457.t27 Gene=g15457 Length=1313
ATGGCACCATTACGTTGGGGAATTGCATCAGCTGGTAAAATTTCAAATGACTTTTGTGCA
GCTTTATCAACATATTCTCAAGATGATCATCAGGTCGTCGCGGTTGCGGCTCGCTCATTG
GAGGATGCAAAGGAATTTGCAGAAACATTCAATATTCCTAGGACTCATGAAGGTTACCAA
AAATTAGCTCAGGATCCAGAAGTTGATGTTGTTTATATTGGATCTATTAATACCACACAT
CTTGAAATTGGTTTAATGATGTTGGATGGTGGCAAACATATTCTTTGTGAAAAGCCTTTG
ACATTAAATGTAAAACAAGCTGAACAACTTTTAAATCATGCAAAAGAGAAGAAATTATTT
TGTATGGAAGCAATTTGGTCAAGATATTTTCCAATTTATAGACAACTTAAAGCTCGTATT
AACAATGGTGATCTTGGTGACATTAAAGAAGTTTATGCTGAATTTGGTGTTGAAATGGCA
GATGTTGATCTAATTTAGGAAAAATGAACTTGGAGGTGGTTCCACATTGGATATTGGAAC
CTATGCAATTCAATTTTCTCAATTTGTCTTTCGTGCTGAACCGACATCAATTAAAGCAAC
TGGCAAATTAAATGAAGAAGGTGTTGATACTGAAACTGAAGTTGAATTAAAATATCCAAA
TGGTGGTGTTGCTCGTTATAAGACTAATTCAACAAAAGAACTCAGCAACATTGCAACTGT
AACAGGAAGCAAAGGCACAATGAAGCTCCATACTTTCTGGTGTCCAACTGAATTAGAAGA
TGTTGATGGTCAAATGAAAAAATTCGAATTACCACAAAATCGACTTGGTAAATTTATTTA
CTTCCATGGTGCTGGCATGCGATATGAAGCAGAAGAAGTAAGAAGATGCATCAATGAAGG
TTTGACTGAAAGTGAAGATGCAACACATAATGACAGTCTTGTCATTGCTCGTATTCGTGA
TGAAATTCGTAGACAACTTGGTGTTAAATTTGATGAAGACTGAAATTTAATGGAAACTAA
ATTATGAAATGGATCTCTTGAAATGTGACATGATAAGCAAAGAAATAAGAAAATTGTTAG
TTTTGTATAAATATTGAATTATGAGGAAGAGAAGAAATACCAAAAATGTCCCAAAAAATT
AATATATTTCATAATATCCGAACGAAATTTTTTTCATTCCTGTAATATTTTGTTTGGTTA
TATTTAATTATTTGAACGTCGATATATTTTTAAGTTTTATTTTAATCTATTATTTTGTAT
GCACGAATGAAATTCATTTATCATAACAATAAAATAAAATTACATATTTTGCA

>g15457.t27 Gene=g15457 Length=165
MAPLRWGIASAGKISNDFCAALSTYSQDDHQVVAVAARSLEDAKEFAETFNIPRTHEGYQ
KLAQDPEVDVVYIGSINTTHLEIGLMMLDGGKHILCEKPLTLNVKQAEQLLNHAKEKKLF
CMEAIWSRYFPIYRQLKARINNGDLGDIKEVYAEFGVEMADVDLI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
5 g15457.t27 Gene3D G3DSA:3.40.50.720 - 3 123 0.0e+00
6 g15457.t27 Gene3D G3DSA:3.30.360.10 Dihydrodipicolinate Reductase; domain 2 124 163 4.9e-06
2 g15457.t27 PANTHER PTHR22604 OXIDOREDUCTASES 2 161 0.0e+00
3 g15457.t27 PANTHER PTHR22604:SF105 TRANS-1,2-DIHYDROBENZENE-1,2-DIOL DEHYDROGENASE 2 161 0.0e+00
1 g15457.t27 Pfam PF01408 Oxidoreductase family, NAD-binding Rossmann fold 4 122 0.0e+00
4 g15457.t27 SUPERFAMILY SSF51735 NAD(P)-binding Rossmann-fold domains 3 156 0.0e+00

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

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