RetrogeneDB ID: retro_ocun_394

Retrocopy location

• Organism: Rabbit (Oryctolagus cuniculus)
• Coordinates: 1:139272760..139273096(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: BMP7
• Ensembl ID: ENSOCUG00000025711
• Aliases: None
• Description: bone morphogenetic protein 7 [Source:HGNC Symbol;Acc:1074]

Sequence

>retro_ocun_394
GCAGAAAACAACTGCAGTGACCAGAGGAAGGCATGCAAGAGACAAGAGCCAGACTTCAGCTTCCACGAGCTGGGCTGGCA
GAACTGGATCATCAAGCCTGAAGGCTACGCTGCATACCACTGTGAGGGGGAGTGTGCTTTCCTTCTCAAATCCTGCACGA
ACACCACCTGCCATGCCATCATGCAAACCCCGGTCCACTTCATCAACCAGGATACAGTTCCCAAGACCTGCTAGGCCCCA
ACTCAGCTCAATGCCATCTCTGCCCTTTGCTTTCATGACAGTTCCAGTGTCATCCTAAAGAAATAGAGAACTATGGCAGT
CCAGCCCTGTTGCCAC

Alignment

ORF - retro_ocun_394 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 69.03 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  SENSSSDQRQACKKHELYVSFRDLGWQDWIIAPEGYAAYYCEGECAFPLNSYMNATNHAIVQTLVHFINP
          .EN..SDQR.ACK..E...SF..LGWQ.WII.PEGYAAY.CEGECAF.L.S..N.T.HAI.QT.VHFIN.
Retrocopy AENNCSDQRKACKRQEPDFSFHELGWQNWIIKPEGYAAYHCEGECAFLLKSCTNTTCHAIMQTPVHFINQ

Parental  DTVPKPCCAPTQLNAISVLYFDDSSNVILKKYRNMVVRACGCH
          DTVPK.C.APTQLNAIS.L.F.DSS.VILKK.R.M.V..C.CH
Retrocopy DTVPKTC*APTQLNAISALCFHDSSSVILKK*RTMAVQPC-CH

Legend:

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

Expression

RNA-Seq

Expression validation based on RNA-Seq data:

Library	Retrocopy expression	Parental gene expression
SRP017611_brain	0.00 RPM	6.29 RPM
SRP017611_kidney	0.00 RPM	9.93 RPM
SRP017611_liver	0.00 RPM	9.33 RPM

ChIP-Seq

Oryctolagus cuniculus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_ocun_394 retrocopy.

TSS

Oryctolagus cuniculus was not studied using FANTOM5 data.

Lab

retro_ocun_394 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ocun_394 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

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

Species	Parental gene accession	Retrocopies number
Oryctolagus cuniculus	ENSOCUG00000025711	1 retrocopy	retro_ocun_394 ,
Xenopus tropicalis	ENSXETG00000011272	1 retrocopy	retro_xtro_7,