RetrogeneDB ID: retro_drer_20

Retrocopy location

• Organism: Zebrafish (Danio rerio)
• Coordinates: 10:37052400..37052665(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: si:dkey-241l7.5
• Ensembl ID: ENSDARG00000088989
• Aliases: None
• Description: si:dkey-241l7.5 [Source:ZFIN;Acc:ZDB-GENE-041014-237]

Sequence

>retro_drer_20
CATAATCAAGTGGAGAATGATTTTCTGCTGAGTCTGGTGCCGGGCTCCACACGCTGCTGGATTGGTGGAAAATGATGGTG
AAAAAAATGTACAGTGGTTGTGGTCTGATGAATCTGTGTATGGTTACACCAACTGGTGCTCAGGAGAGCCTAGTAGCGGG
TCTGAGCACTGCTTGGAGATCAACTGGACATCGAACCATTGCTGGAACAATCAGGGCTGTTCAAGTCGAATGAGCTATCT
GTGCGCTAAACCGTTTGTACCGTGT

Alignment

ORF - retro_drer_20 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 87.64 %
• Parental protein coverage: 57.52 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  HDQVENDFLLSLVPGSTRCWIGG-HDGEQDGQWLWSDGSVYGYTNWCSGEPSSGSEHCLEINWTSNHCWN
          H.QVENDFLLSLVPGSTRCWIGG..DGE...QWLWSD.SVYGYTNWCSGEPSSGSEHCLEINWTSNHCWN
Retrocopy HNQVENDFLLSLVPGSTRCWIGG>NDGEKNVQWLWSDESVYGYTNWCSGEPSSGSEHCLEINWTSNHCWN

Parental  NQGCSTRMGYLCAKRRVPC
          NQGCS.RM.YLCAK..VPC
Retrocopy NQGCSSRMSYLCAKPFVPC

Legend:

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

Expression

RNA-Seq

Danio rerio was not studied using RNA-Seq expression data.

ChIP-Seq

Danio rerio was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_drer_20 retrocopy.

TSS

Danio rerio was not studied using FANTOM5 data.

Lab

retro_drer_20 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_drer_20 has 0 orthologous retrocopies within teleost group .

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Parental genes homology:

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

Species	Parental gene accession	Retrocopies number
Danio rerio	ENSDARG00000088989	2 retrocopies	retro_drer_20 , retro_drer_36,