Gene loci information

Transcript annotation

  • This transcript has been annotated as 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.t1 TTS g9020.t1 34690498 34690498
chr_2 g9020 g9020.t1 isoform g9020.t1 34690907 34692845
chr_2 g9020 g9020.t1 exon g9020.t1.exon1 34690907 34690954
chr_2 g9020 g9020.t1 cds g9020.t1.CDS1 34690907 34690954
chr_2 g9020 g9020.t1 exon g9020.t1.exon2 34691249 34691328
chr_2 g9020 g9020.t1 cds g9020.t1.CDS2 34691249 34691328
chr_2 g9020 g9020.t1 exon g9020.t1.exon3 34691426 34691476
chr_2 g9020 g9020.t1 cds g9020.t1.CDS3 34691426 34691476
chr_2 g9020 g9020.t1 exon g9020.t1.exon4 34691540 34691853
chr_2 g9020 g9020.t1 cds g9020.t1.CDS4 34691540 34691853
chr_2 g9020 g9020.t1 exon g9020.t1.exon5 34692492 34692510
chr_2 g9020 g9020.t1 cds g9020.t1.CDS5 34692492 34692510
chr_2 g9020 g9020.t1 exon g9020.t1.exon6 34692608 34692845
chr_2 g9020 g9020.t1 cds g9020.t1.CDS6 34692608 34692845
chr_2 g9020 g9020.t1 TSS g9020.t1 34693064 34693064

Sequences

>g9020.t1 Gene=g9020 Length=750
ATGATGTCCATTGAATACAAGTGTGAAGAAGATGAGCAGAAGAAGAAATTACGTGAGCTC
ACTAAATCTTTTTGTGGTATTGATAAGCCGTTAAAAAATTACGTGAATCACGTGGAGAGT
TTAAATGAACTTATACGTGAGCTTCACGTTGTCTTTTCTTCGGACTACGTTAATATTGAA
AGAGTAAACCATCTTATGATGGTATATACAAGCAATTATAAGGATTGGAAAAAATTTGCT
AAATTCGACAGATACAGGTATACGCGAAATCTTGTGGATGCAGGCAATGATAAGTTTAAT
TTGATGATTCTTTGCTGGAATGAAGGACAAACTTCGGCAATTCATGATCATGCTGATTCA
CATTGTTTTATGAAAGTTTTAAAAGGAGGATTAACTGAAGTTAAATATTTGATGCCAAAT
CAAAATAATACACAAATTTCACATATGGAACCAAACCTTCCTGCTGATATTGGCATCTAT
CATCATCCAGAAGAAGAACACCACAATGAAGAACAATTACAAGAAATTTGCAGAACAACT
CTCTATGAGAATCAAGTTTGTTACATCAATGATAACTTGGGTTTGCATCGTGTCGAAAAT
GTTTCCAATACTGATGTTGCTGTCTCGCTGCACCTTTATTGTCCACCTTTTGATGCATGT
GGGATCTATAATAAAGCAACTGGAAAGAAAACCAAATGTCCTGTCACTTTTTGGAGTAAA
TTTGGCAAACGTGAAAAAATTCCAGAATGA

>g9020.t1 Gene=g9020 Length=249
MMSIEYKCEEDEQKKKLRELTKSFCGIDKPLKNYVNHVESLNELIRELHVVFSSDYVNIE
RVNHLMMVYTSNYKDWKKFAKFDRYRYTRNLVDAGNDKFNLMILCWNEGQTSAIHDHADS
HCFMKVLKGGLTEVKYLMPNQNNTQISHMEPNLPADIGIYHHPEEEHHNEEQLQEICRTT
LYENQVCYINDNLGLHRVENVSNTDVAVSLHLYCPPFDACGIYNKATGKKTKCPVTFWSK
FGKREKIPE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
5 g9020.t1 CDD cd10548 cupin_CDO 87 217 0
4 g9020.t1 Gene3D G3DSA:2.60.120.10 Jelly Rolls 29 248 0
2 g9020.t1 PANTHER PTHR12918 CYSTEINE DIOXYGENASE 35 245 0
1 g9020.t1 Pfam PF05995 Cysteine dioxygenase type I 35 225 0
3 g9020.t1 SUPERFAMILY SSF51182 RmlC-like cupins 39 244 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