RetrogeneDB ID:

retro_brap_56

Retrocopy
location
Organism:Chinese cabbage (Brassica rapa)
Coordinates:A10:14702783..14703065(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:Bra029327
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_brap_56
ATGTCTGAGACAATTCCAATAATTTCTTTTCTCTGCGATTTGCCGGTGATTGTTCCAAGGAGCGTTAAGCAGTCGGTGTG
GATTCTGAGATCGGCGATCTCTAGCTCCACAGCCTTCGATAGAGCCGCTCGAACCGCCATGGCTTCCGCCACTAGTGGTG
ATCCAACAAACTCCTCTACACGGGTTTCTTCCCATACGATCGGGGGGGATGAGCCTGAGAACGTCCAGGCTAGTCATGCT
CTCTTTCTCTCTTTCTCCCAAGCCGCGTCTGTGTGGCAGATG

ORF - retro_brap_56 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 66.33 %
Parental protein coverage: 57.99 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMSETIPIISFLCDLPVIVPRSVKQSVWILRSAISSSTAFDRAARTAMASAASGDPTRNHSCIMVNHRHYI
MSETIPIISFLCDLPVIVPRSVKQSVWILRSAISSSTAFDRAARTAMASA.SGDPT...........H.I
RetrocopyMSETIPIISFLCDLPVIVPRSVKQSVWILRSAISSSTAFDRAARTAMASATSGDPTNSSTRV---SSHTI
ParentalMSQEPKNQQLLNTLHKITKSRGAALQQL
...EP.N.Q....L.....S..A...Q.
RetrocopyXXXEPENVQASHALF-LSFSQAASVWQM

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






Brassica rapa was not studied using RNA-Seq expression data.
Brassica rapa was not studied using ChIP-Seq data.
Brassica rapa was not studied using EST data.
Brassica rapa was not studied using FANTOM5 data.
retro_brap_56 was not experimentally validated.

Retrocopy orthology:
Brassica rapa 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.

Parental genes homology:
Parental genes homology involve 1 parental gene, and 2 retrocopies.

Species Parental gene accession Retrocopies number
Brassica rapa Bra029327 2 retrocopies
retro_brap_40, retro_brap_56 ,



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