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.t33 TTS g9020.t33 34690498 34690498
chr_2 g9020 g9020.t33 isoform g9020.t33 34690512 34692845
chr_2 g9020 g9020.t33 exon g9020.t33.exon1 34690512 34690954
chr_2 g9020 g9020.t33 cds g9020.t33.CDS1 34690938 34690954
chr_2 g9020 g9020.t33 exon g9020.t33.exon2 34691245 34691328
chr_2 g9020 g9020.t33 cds g9020.t33.CDS2 34691245 34691328
chr_2 g9020 g9020.t33 exon g9020.t33.exon3 34691426 34691476
chr_2 g9020 g9020.t33 cds g9020.t33.CDS3 34691426 34691476
chr_2 g9020 g9020.t33 exon g9020.t33.exon4 34691540 34691853
chr_2 g9020 g9020.t33 cds g9020.t33.CDS4 34691540 34691853
chr_2 g9020 g9020.t33 exon g9020.t33.exon5 34692604 34692845
chr_2 g9020 g9020.t33 cds g9020.t33.CDS5 34692604 34692845
chr_2 g9020 g9020.t33 TSS g9020.t33 34693064 34693064

Sequences

>g9020.t33 Gene=g9020 Length=1134
ATGATGTCCATTGAATACAAGTGTGAAGAAGATGAGCAGAAGAAGAAATTACGTGAGCTC
ACTAAATCTTTTTGTGGTATTGATAAGCCGTTAAAAAATTACGTGAATCACGTGGAGAGT
TTAAATGAACTTATACGTGAGCTTCACGTTGTCTTTTCTTCGGACTACGTTAATATTGAA
AGAGTAAACCATCTTATGATGGTATATACAAGCAATTATAAGGATTGGAAAAAATTTGGT
GAGTATACGCGAAATCTTGTGGATGCAGGCAATGATAAGTTTAATTTGATGATTCTTTGC
TGGAATGAAGGACAAACTTCGGCAATTCATGATCATGCTGATTCACATTGTTTTATGAAA
GTTTTAAAAGGAGGATTAACTGAAGTTAAATATTTGATGCCAAATCAAAATAATACACAA
ATTTCACATATGGAACCAAACCTTCCTGCTGATATTGGCATCTATCATCATCCAGAAGAA
GAACACCACAATGAAGAACAATTACAAGAAATTTGCAGAACAACTCTCTATGAGAATCAA
GTTTGTTACATCAATGATAACTTGGGTTTGCATCGTGTCGAAAATGTTTCCAATACTGAT
GTTGCTGTCTCGCTGCACCTTTATTGTCCACCTTTTGATGCATGTGGGATCTATAATAAA
GCAACTGGAAAGAAAACCAAATGTCCTGTAAGTCACTTTTTGGAGTAAATTTGGCAAACG
TGAAAAAATTCCAGAATGAGCAAGTCAAATGCAGCAATATGTAGCAATGGCAGCAGCATA
CAAAAATATTAGCAATAAGAATTAATTAAGTAATTCAAATGAAAATTATACACTTTTTTA
ACAATTTTTTTTTGCATTTATTTAAATCTGTGTATTTTTTTTCTCTTTTTAATGACTCAT
CATTCTTATAATTATGAGATTAATTAAAAGCTATTATTTGGCGCAATTTTCACAAAAAAT
AAAAATTTTTTGATAGAGGAAAATTTTTTGAAGAAAGAGATAAAAGATATGATAAATAAA
TAAGAGATTTATATTGTACAATAGATGAATGATAGAGAGATTTTACACGAATTTATATGT
TAAATTATGTTTCTTCTATGTAGCAAATGTAAAAATAGTGATAGCAAATAAAAT

>g9020.t33 Gene=g9020 Length=235
MMSIEYKCEEDEQKKKLRELTKSFCGIDKPLKNYVNHVESLNELIRELHVVFSSDYVNIE
RVNHLMMVYTSNYKDWKKFGEYTRNLVDAGNDKFNLMILCWNEGQTSAIHDHADSHCFMK
VLKGGLTEVKYLMPNQNNTQISHMEPNLPADIGIYHHPEEEHHNEEQLQEICRTTLYENQ
VCYINDNLGLHRVENVSNTDVAVSLHLYCPPFDACGIYNKATGKKTKCPVSHFLE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
5 g9020.t33 CDD cd10548 cupin_CDO 82 212 0
4 g9020.t33 Gene3D G3DSA:2.60.120.10 Jelly Rolls 29 235 0
2 g9020.t33 PANTHER PTHR12918 CYSTEINE DIOXYGENASE 35 231 0
1 g9020.t33 Pfam PF05995 Cysteine dioxygenase type I 35 220 0
3 g9020.t33 SUPERFAMILY SSF51182 RmlC-like cupins 39 231 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

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. There were no conditions that were differentially expressed