RetrogeneDB ID: retro_bole_18

Retrocopy location

• Organism: Brassica oleracea
• Coordinates: C9:50544833..50545388(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: Bo9g171530
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: Bo4g188740
• Aliases: None
• Description: None

Sequence

>retro_bole_18
ATGTTCTCGGAGATGTCTGTGTACGGCAGTTACTCTAACGGAGACGGCTTCTTCGGATCCAACGGTGGTCACGACGGTCC
TATCTTGCCACCGCCGTCGGAGATGGAGTCTGATGAGGGAACTGCTCTCAGAGAATGGAGAAGACAGAATGCAATTCAAC
TTGAGGAGAAGGAGAAGAGAGAAAAGGAGTTGTGGAACCAAATAATTGAGCAAGCTAATCAATTCAAAGAGGAGTTTCGT
AAGAAGAGAGAGCTAACTTGTGAAAATAACAAAGCAGCTAACAGGGAGAAAGAAAAGATGTACGTGGAGACCCAGGAGAA
GTTTTACGCGGAAGCCAGCAAGAACTACTGGAAGGCAATAGCAGAGCTAGTTCCTAAAGAGGTTCCAACTATAGAGATGG
AGTCTGGTCCCAAGAAGGCTTCAATCTCTGTGATTCAAGGTCCAAAGCCTAGCAAGCCAACCCATCTCTCAAGAATGAGA
CAGATATTGCTGAAGCTCAAACAGCACCCAAAGAATGTTCAAATCAAGCCCACCGAGGCTGTTGTTGCTGCTTAA

Alignment

ORF - retro_bole_18 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.19 %
• Parental protein coverage: 55.56 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  SDYAAYSNGDDVFGSNGGGHDGPILPPPSEMESDEGNALREWRRQNANQLEEKEKREKEMRNQIIEEANQ
          S.Y..YSNGD..FGSNGG.HDGPILPPPSEMESDEG.ALREWRRQNA.QLEEKEKREKE..NQIIE.ANQ
Retrocopy SVYGSYSNGDGFFGSNGG-HDGPILPPPSEMESDEGTALREWRRQNAIQLEEKEKREKELWNQIIEQANQ

Parental  FKEDFHKKRELACENNKAANREKEKLYVETQEKFYAEASKNYWKAIAELVPKEVPTIEKRRGKKE
          FKE.F.KKREL.CENNKAANREKEK.YVETQEKFYAEASKNYWKAIAELVPKEVPTIE...G.K.
Retrocopy FKEEFRKKRELTCENNKAANREKEKMYVETQEKFYAEASKNYWKAIAELVPKEVPTIEMESGPKK

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Brassica oleracea was not studied using RNA-Seq expression data.

ChIP-Seq

Brassica oleracea was not studied using ChIP-Seq data.

EST

Brassica oleracea was not studied using EST data.

TSS

Brassica oleracea was not studied using FANTOM5 data.

Lab

retro_bole_18 was not experimentally validated.

Homology

Retrocopy orthology:

Brassica oleracea does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.

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Parental genes homology:

Parental genes homology involve 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Brassica oleracea	Bo4g188740	1 retrocopy	retro_bole_18 ,