RetrogeneDB ID: retro_ocun_957

Retrocopy location

• Organism: Rabbit (Oryctolagus cuniculus)
• Coordinates: 17:79078860..79079912(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ZP1
• Ensembl ID: ENSOCUG00000015673
• Aliases: ZP1, Zp-1
• Description: zona pellucida glycoprotein 1 (sperm receptor) (ZP1), mRNA [Source:RefSeq mRNA;Acc:NM_001270480]

Sequence

>retro_ocun_957
GTTGTTGCCTAAGAAATGGCCTTGGCGCACAGAATCATGCTGGCCAATGTCCACTTGGCCTATGCCCCCATGCACTGCCC
ACCAGCCCAGAAGTCCAGTGCTTTTGTCAGCTTCCATATCCCCCTCACCCAGTGTGACACCACAGTTCAAGTGCTTGTGA
GCTGGCTCATCTACGAGAACCAGCTTGTGTCTGACATTGACATCCAGGAGGGGCCACAGGGTTCCATCACATGGGACAGC
TCCTCCTGGCTTCACGTCCACTGTGTCTTCAGTGCCAGCAACTTCCTTCCCATCCAGGTGTCCATCTTTTCACCTCTATT
GCCTGCCCCTGTAACTCAGGCTGGCCTCCTGTGGCTGGAGCTAGGGATTGCCAGGGATGAGACTTTTAGCTCCTTATGTG
AAGAGGAGACTATCCCCTTGCGAGGCTGCTCTGAGAACTGGTCCATGTGGCAGTCCAGCTGGTGCAGAGGACAGACCCCA
GTCTGGTGCTGGTGCTACACCAGTGTTGGGCCACTCCCAGTGCCAACACCTTCCAGCAGCCCCAGTGGCCCCTCCTGTCA
GACGGGTGTCCTTTCAAGGATGACAGCTACAGAACCCGAATGGTAGCCTTGGAACAGGTAGTGCTGCCCTTCCAGTCTCA
CTACCAGCATTTCACAGTTACTACCTTCACTTTCCTGGACTCTGGGGCTCAGTGAGCCCTCAGGGGACTGGTTTACTTCT
TCTGCAGCACCTCAGCCTGCCACCCCTCAGGGCCAGAGGCTTGCTCATCTACATGTAGCTCTGGCACTGCCAAGCGCAGA
TGATGCTCAGGTTACCATGACAGCATCCCCGTGCCCCTGGACATCGTGAGTTCTCCAGGGCCAGTGGGATTCCAGGATTC
TCACAGGCAGGAGCCCACGCTGGAGTCCACAGGCTCCAGCAGGAACTCCAACCCAAAGCCTCTGCTCTGGGTGGTGCTTC
TGTTGCTGGCTATTGCCCTTGTCCTGGGGATCGGTGTCTTTGTGGGCCTGAGCCAGGCCTGGGCCCACAAGCTCCAGGAA
GGCAACAGGCTC

Alignment

ORF - retro_ocun_957 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.39 %
• Parental protein coverage: 55.89 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  VVAQEMALAHRITLANVHLAYAPTRCPPAQKTSAFVIFHVPLTHCGTTVQVLGSQLFYENQLVSDIDVRE
          VVA.EMALAHRI.LANVHLAYAP..CPPAQK.SAFV.FH.PLT.C.TTVQVL.S.L.YENQLVSDID..E
Retrocopy VVA*EMALAHRIMLANVHLAYAPMHCPPAQKSSAFVSFHIPLTQCDTTVQVLVSWLIYENQLVSDIDIQE

Parental  GPQGSITRDSSFRLLVRCIFNASDFLPIQASIFSPPLPAPVTQAGPLRLELRIARDETFSSFYEEE-DYP
          GPQGSIT.DSS..L.V.C.F.AS.FLPIQ.SIFSP.LPAPVTQAG.L.LEL.IARDETFSS..EEE.DYP
Retrocopy GPQGSITWDSSSWLHVHCVFSASNFLPIQVSIFSPLLPAPVTQAGLLWLELGIARDETFSSLCEEE<DYP

Parental  LVRLLREPVHVEVRLLQRTDPSLVLELHQCWATPSANPVQQPQWPLLSDGCPFKGDSYRTRVLALDRAEL
          L.RLL.E.VHV.V.L.QRTDPSLVL.LHQCWATPSAN..QQPQWPLLSDGCPFK.DSYRTR..AL....L
Retrocopy LARLL*ELVHVAVQLVQRTDPSLVLVLHQCWATPSANTFQQPQWPLLSDGCPFKDDSYRTRMVALEQVVL

Parental  PFRSHYQRFTVATFTFLDSGAQRALRGLVYFFCSASACHPSGPETCSSTCSSRTAKRRRSSGYHDGTPRA
          PF.SHYQ.FTV.TFTFLDSGAQ.ALRGLVYFFCS.SACHPSGPE.CSSTCSS.TAKRR..SGYHD..P..
Retrocopy PFQSHYQHFTVTTFTFLDSGAQ*ALRGLVYFFCSTSACHPSGPEACSSTCSSGTAKRR*CSGYHDSIPVP

Parental  LDIVSSPGPVGFQDSHRQEPTLESTGSGRNSNPKPLLWVVLLLLAIALVLGIGVFVGLSQAWAHKLREGH
          LDIVSSPGPVGFQDSHRQEPTLESTGS.RNSNPKPLLWVVLLLLAIALVLGIGVFVGLSQAWAHKL.EG.
Retrocopy LDIVSSPGPVGFQDSHRQEPTLESTGSSRNSNPKPLLWVVLLLLAIALVLGIGVFVGLSQAWAHKLQEGN

Parental  RL
          RL
Retrocopy RL

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	0.00 RPM
SRP017611_kidney	0.00 RPM	0.10 RPM
SRP017611_liver	0.00 RPM	0.39 RPM

ChIP-Seq

Oryctolagus cuniculus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_ocun_957 retrocopy.

TSS

Oryctolagus cuniculus was not studied using FANTOM5 data.

Lab

retro_ocun_957 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ocun_957 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Oryctolagus cuniculus	ENSOCUG00000015673	1 retrocopy	retro_ocun_957 ,