RetrogeneDB ID: retro_drer_24

Retrocopy location

• Organism: Zebrafish (Danio rerio)
• Coordinates: 19:6081776..6082075(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: FP016235.1
• Ensembl ID: ENSDARG00000090390
• Aliases: None
• Description: None

Sequence

>retro_drer_24
TCTGTTCATCAATCAATCCGTCCATCTATCATCTGTTCATCTGTCCGTCCATCCACAAATATATCCATCCATCCATCCAT
CTGTTGATCCATTAATCTACAAATCCATTCATCTATCCTTCTATCCATCCATCAATGAATCCATCCATCAATTCATTCAT
ACATACATCCTTCATCTATCTGTATTTCCATTTTTCTATTTATCCATCCCTCAGTCTAGCCATCTGTCTGCCAGCCATCA
GTCCATCCTTCCTTCCATCCACCCATTTGTCAACCTGTCGTATCCATCCATACATTCAT

Alignment

ORF - retro_drer_24 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 51.49 %
• Parental protein coverage: 51.34 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  SIHPSIHPSI-HPSIHPSIHPYIHPSIHPSIHPSIHPSIHPFIHPSITLCIILFVYLLF-YLSIHLSTTS
          S.H.SI.PSI.H..I.PSIH.YIHPSIH..IH.S..P.I.P.IHPS....I..F....F.YL..H.S...
Retrocopy SVHQSIRPSI<HLFICPSIHKYIHPSIHLLIH*STNPFIYPSIHPSMNPSINSFIHTSFIYLYFHFSIYP

Parental  SIILFVCLSICHPSIHPSIHPS---IHPSIH
          S..L..CL....PS..PS.H.S...IHP.IH
Retrocopy SLSLAICLPAISPSFLPSTHLSTCRIHPYIH

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_24 retrocopy.

TSS

Danio rerio was not studied using FANTOM5 data.

Lab

retro_drer_24 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_drer_24 has 0 orthologous retrocopies within teleost group .

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Parental genes homology:

Parental genes homology involve 2 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Danio rerio	ENSDARG00000086035	3 retrocopies	retro_drer_25, retro_drer_34, retro_drer_37,
Danio rerio	ENSDARG00000090390	1 retrocopy	retro_drer_24 ,