RetrogeneDB ID: retro_drer_25

Retrocopy location

• Organism: Zebrafish (Danio rerio)
• Coordinates: 19:48956041..48956249(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CABZ01062563.1
• Ensembl ID: ENSDARG00000086035
• Aliases: None
• Description: None

Sequence

>retro_drer_25
TCCATCCATCCATCTCCATATCTCTATCTTTCCATAAAATCATCCGCCCATCTGTCCTTGCATCCATCATTTATCCATCT
ATATATATATCCTTGCATCCTTCCATCAATCTAGCCTTGCATCCACCCATTTAAACCATCCTTGCATCCACCCATCCATC
CATCCTAGCACTTATGCATCCACCTTTGTATCAATCCATCCATCTATG

Alignment

ORF - retro_drer_25 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 52.78 %
• Parental protein coverage: 68.63 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  SIHPSIHPSIHPSIHPSIHAILLPS-VCLLFHPSIHPSIHPSIHPSI-HPFIHPSIYPSIPHFVYCSIHP
          SIHPS..P....SI..S.H..L.PS...L...P.I.PSI.P.IHP...HP.IHPSI.PS.......SIHP
Retrocopy SIHPS--PYLYLSIKSSAHLSLHPSFIHLYIYPCILPSI*PCIHPFK>HPCIHPSIHPSTYASTFVSIHP

Parental  SM
          SM
Retrocopy SM

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_25 retrocopy.

TSS

Danio rerio was not studied using FANTOM5 data.

Lab

retro_drer_25 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_drer_25 has 0 orthologous retrocopies within teleost group .

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Parental genes homology:

Parental genes homology involve 3 parental genes, and 5 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,
Ficedula albicollis	ENSFALG00000013753	1 retrocopy	retro_falb_17,