RetrogeneDB ID: retro_ocun_1702

Retrocopy location

• Organism: Rabbit (Oryctolagus cuniculus)
• Coordinates: GL018787:710630..711476(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSOCUG00000006767
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: ENTPD5
• Ensembl ID: ENSOCUG00000006803
• Aliases: None
• Description: ectonucleoside triphosphate diphosphohydrolase 5 [Source:HGNC Symbol;Acc:3367]

Sequence

>retro_ocun_1702
GTGGAGGTAGAGGAGATCTTCAAGAAGTCACCTTTCCTGGTACCGGACGACGGTGTTGGCATCATGGACGGATCCCGTGA
AGGCATCTTAGCTTGGGTTACTGTGAATTTTCTGACAGGTCAGCTGCATGGCCGTGGCCAGGAGACTGTGGGGACCCTGG
ACCTGAGGGGGGCCTCCACCCAAATCACATTTCTGCCGAAGTTTAAGAAAACCCTGGAACAAACCCCTAAGGACTACCTC
ACTTCCTTTGAGATGTTTAACAGCATTTATAAGCTCTATACACATAGTTACTTGGGATTTGGATTGAAAGCTGCAAGACT
AGCAACGCTGGGCACCCTGGAGACAGAAGGAATTGATGGACACACTTTCCAAGGTGCCTGTCTACCGAGATGGTTGGAAG
CAGAGTGGATCTTTGAGGGTGTAAAATACCAATATGGTGGCAACCAAGAAGGGGACATGGGCTTTGAGCCCTGCTCTGCT
GAAGTGCTGAGAGTGGTACAAGGGAAGCTGCCCCAGCCAGAGGAGGTCCAGAGAAGCTCCTTCTATGCATCCTGTTACTA
CTGCAATCGGGCTGTTGACACGGGCATGATCGGTTATGCAAAGGGGGTGTTTTAAAGGTTGAAGATTTTGAAAGAAAGGC
CAGGGAAGTGTGTGATAACCTGGAGAAGTTCACCTCAGGCAGCCCTTTCCTGTGTATGGATCTCAGCTACATCACAGCCC
TGCTGAAGGACGGCTTTGGCTTTGCGGACGGCACCGTCTTACAGCTCGCAAAGAAACTGAACAACAGAGATGGGCTGGGC
CTTGGGAGCCACATTTCACCTGTTGCAGTCTCTGGGCATCTCCTAC

Alignment

ORF - retro_ocun_1702 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 90.88 %
• Parental protein coverage: 66.12 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  LEVEEIFKKSPFLVPDDSVGIMDGSDEGILAWVTVNFLTGQLHGRGQETVGTLDLGGASTQITFLPKFKK
          .EVEEIFKKSPFLVPDD.VGIMDGS.EGILAWVTVNFLTGQLHGRGQETVGTLDL.GASTQITFLPKFKK
Retrocopy VEVEEIFKKSPFLVPDDGVGIMDGSREGILAWVTVNFLTGQLHGRGQETVGTLDLRGASTQITFLPKFKK

Parental  TLEQTPKDYLTSFEMFNSTYKLYTHSYLGFGLKAARLATLGALETEGIDGHTFRSACLPRWLEAEWIFGG
          TLEQTPKDYLTSFEMFNS.YKLYTHSYLGFGLKAARLATLG.LETEGIDGHTF..ACLPRWLEAEWIF.G
Retrocopy TLEQTPKDYLTSFEMFNSIYKLYTHSYLGFGLKAARLATLGTLETEGIDGHTFQGACLPRWLEAEWIFEG

Parental  VKYQYGGNQEGDMGFEPCYAEVLRVVQGKLHQPEEVQRSSFYAFSYYYDRAVDTGMIDYA-KGGVLKVED
          VKYQYGGNQEGDMGFEPC.AEVLRVVQGKL.QPEEVQRSSFYA..YY..RAVDTGMI.YA.KGGVLKVED
Retrocopy VKYQYGGNQEGDMGFEPCSAEVLRVVQGKLPQPEEVQRSSFYASCYYCNRAVDTGMIGYA<KGGVLKVED

Parental  FERKAREVCDNLEKFSSGSPFLCMDLSYITALLKDGFGFADSTVLQLAKKVNNIETGWALG-ATFHLLQS
          FERKAREVCDNLEKF.SGSPFLCMDLSYITALLKDGFGFAD.TVLQLAKK.NN...G..LG.ATFHLLQS
Retrocopy FERKAREVCDNLEKFTSGSPFLCMDLSYITALLKDGFGFADGTVLQLAKKLNN-RDGLGLG>ATFHLLQS

Parental  LGISY
          LGISY
Retrocopy LGISY

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	0.06 RPM	7.12 RPM
SRP017611_kidney	0.20 RPM	102.57 RPM
SRP017611_liver	0.08 RPM	32.53 RPM

ChIP-Seq

Oryctolagus cuniculus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_ocun_1702 retrocopy.

TSS

Oryctolagus cuniculus was not studied using FANTOM5 data.

Lab

retro_ocun_1702 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ocun_1702 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
Microcebus murinus	ENSMICG00000003012	1 retrocopy	retro_mmur_227,
Oryctolagus cuniculus	ENSOCUG00000006803	1 retrocopy	retro_ocun_1702 ,