Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Cysteine dioxygenase type 1.

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_2 g9020 g9020.t29 TTS g9020.t29 34690498 34690498
chr_2 g9020 g9020.t29 isoform g9020.t29 34690512 34692845
chr_2 g9020 g9020.t29 exon g9020.t29.exon1 34690512 34690954
chr_2 g9020 g9020.t29 cds g9020.t29.CDS1 34690907 34690954
chr_2 g9020 g9020.t29 exon g9020.t29.exon2 34691249 34691328
chr_2 g9020 g9020.t29 cds g9020.t29.CDS2 34691249 34691328
chr_2 g9020 g9020.t29 exon g9020.t29.exon3 34691426 34691476
chr_2 g9020 g9020.t29 cds g9020.t29.CDS3 34691426 34691476
chr_2 g9020 g9020.t29 exon g9020.t29.exon4 34691540 34691853
chr_2 g9020 g9020.t29 cds g9020.t29.CDS4 34691540 34691807
chr_2 g9020 g9020.t29 exon g9020.t29.exon5 34692492 34692845
chr_2 g9020 g9020.t29 TSS g9020.t29 34693064 34693064

Sequences

>g9020.t29 Gene=g9020 Length=1242
ATGATGTCCATTGAATACAAGTGTGAAGAAGATGAGCAGAAGAAGAAATTACGTGAGCTC
ACTAAATCTTTTTGTGGTATTGATAAGCCGTTAAAAAATTACGTGAATCACGTGGAGAGT
TTAAATGAACTTATACGTGAGCTTCACGTTGTCTTTTCTTCGGACTACGTTAATATTGAA
AGAGTAAACCATCTTATGATGGTATATACAAGCAATTATAAGGATTGGAAAAAATTTGGT
GAGTTAATAATTGCATTAATGCATTTATGCAACAATATTTACATAAAAGGTCACAACCTC
ATTTAATCTGTTCTTAAAATAAATTCTATTTTCAGCTAAATTCGACAGATACAGGTATAC
GCGAAATCTTGTGGATGCAGGCAATGATAAGTTTAATTTGATGATTCTTTGCTGGAATGA
AGGACAAACTTCGGCAATTCATGATCATGCTGATTCACATTGTTTTATGAAAGTTTTAAA
AGGAGGATTAACTGAAGTTAAATATTTGATGCCAAATCAAAATAATACACAAATTTCACA
TATGGAACCAAACCTTCCTGCTGATATTGGCATCTATCATCATCCAGAAGAAGAACACCA
CAATGAAGAACAATTACAAGAAATTTGCAGAACAACTCTCTATGAGAATCAAGTTTGTTA
CATCAATGATAACTTGGGTTTGCATCGTGTCGAAAATGTTTCCAATACTGATGTTGCTGT
CTCGCTGCACCTTTATTGTCCACCTTTTGATGCATGTGGGATCTATAATAAAGCAACTGG
AAAGAAAACCAAATGTCCTGTCACTTTTTGGAGTAAATTTGGCAAACGTGAAAAAATTCC
AGAATGAGCAAGTCAAATGCAGCAATATGTAGCAATGGCAGCAGCATACAAAAATATTAG
CAATAAGAATTAATTAAGTAATTCAAATGAAAATTATACACTTTTTTAACAATTTTTTTT
TGCATTTATTTAAATCTGTGTATTTTTTTTCTCTTTTTAATGACTCATCATTCTTATAAT
TATGAGATTAATTAAAAGCTATTATTTGGCGCAATTTTCACAAAAAATAAAAATTTTTTG
ATAGAGGAAAATTTTTTGAAGAAAGAGATAAAAGATATGATAAATAAATAAGAGATTTAT
ATTGTACAATAGATGAATGATAGAGAGATTTTACACGAATTTATATGTTAAATTATGTTT
CTTCTATGTAGCAAATGTAAAAATAGTGATAGCAAATAAAAT

>g9020.t29 Gene=g9020 Length=148
MILCWNEGQTSAIHDHADSHCFMKVLKGGLTEVKYLMPNQNNTQISHMEPNLPADIGIYH
HPEEEHHNEEQLQEICRTTLYENQVCYINDNLGLHRVENVSNTDVAVSLHLYCPPFDACG
IYNKATGKKTKCPVTFWSKFGKREKIPE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
5 g9020.t29 CDD cd10548 cupin_CDO 1 116 0
4 g9020.t29 Gene3D G3DSA:2.60.120.10 Jelly Rolls 1 148 0
2 g9020.t29 PANTHER PTHR12918 CYSTEINE DIOXYGENASE 1 144 0
1 g9020.t29 Pfam PF05995 Cysteine dioxygenase type I 1 124 0
3 g9020.t29 SUPERFAMILY SSF51182 RmlC-like cupins 1 143 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:0016702 oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen MF
GO:0005506 iron ion 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