RetrogeneDB ID: retro_cpor_927

Retrocopy location

• Organism: Guinea Pig (Cavia porcellus)
• Coordinates: scaffold_35:14957868..14958051(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ENY2
• Ensembl ID: ENSCPOG00000010988
• Aliases: None
• Description: None

Sequence

>retro_cpor_927
GTTAGCTAGATGAACAAAGATGTGCAGATGAGAGCAGCGATTAACCAAAAGTTAATAGAAACTGGAGAAAGAGAAGGCCT
CACAGAGCTGCTGCGAGCTAAATTAATTGAATGTGGCTAGAAGGATCAGGTGAAGCCATACTATATAGAGGCAATTAAAG
AACAATGATTAGAACATGTTACT

Alignment

ORF - retro_cpor_927 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 78.69 %
• Parental protein coverage: 60.4 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  VSKMNKDAQMRAAINQKLIETGERERLKELLRAKLIECGWKDQLKAHCKEVIKEKGLEHVT
          VS.MNKD.QMRAAINQKLIETGERE.L.ELLRAKLIECG.KDQ.K....E.IKE..LEHVT
Retrocopy VS*MNKDVQMRAAINQKLIETGEREGLTELLRAKLIECG*KDQVKPYYIEAIKEQ*LEHVT

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	15.99 RPM
SRP017611_kidney	0.00 RPM	23.45 RPM
SRP017611_liver	0.00 RPM	19.85 RPM
SRP040447_lung	0.00 RPM	14.50 RPM
SRP040447_skeletal_muscle	0.00 RPM	12.36 RPM

ChIP-Seq

Cavia porcellus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_cpor_927 retrocopy.

TSS

Cavia porcellus was not studied using FANTOM5 data.

Lab

retro_cpor_927 was not experimentally validated.

Homology

Retrocopy orthology:

Cavia porcellus does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.

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Parental genes homology:

Parental genes homology involve 12 parental genes, and 27 retrocopies.

Species	Parental gene accession	Retrocopies number
Anolis carolinensis	ENSACAG00000003039	1 retrocopy	retro_acar_1,
Callithrix jacchus	ENSCJAG00000006389	4 retrocopies	retro_cjac_1206, retro_cjac_1355, retro_cjac_1436, retro_cjac_550,
Cavia porcellus	ENSCPOG00000010988	1 retrocopy	retro_cpor_927 ,
Dasypus novemcinctus	ENSDNOG00000007377	1 retrocopy	retro_dnov_25,
Echinops telfairi	ENSETEG00000010882	2 retrocopies	retro_etel_1826, retro_etel_450,
Microcebus murinus	ENSMICG00000012948	3 retrocopies	retro_mmur_1041, retro_mmur_773, retro_mmur_793,
Myotis lucifugus	ENSMLUG00000027585	1 retrocopy	retro_mluc_357,
Macaca mulatta	ENSMMUG00000006104	2 retrocopies	retro_mmul_1094, retro_mmul_1490,
Pongo abelii	ENSPPYG00000025888	1 retrocopy	retro_pabe_750,
Sarcophilus harrisii	ENSSHAG00000001787	4 retrocopies	retro_shar_454, retro_shar_675, retro_shar_815, retro_shar_816,
Tupaia belangeri	ENSTBEG00000000273	4 retrocopies	retro_tbel_2257, retro_tbel_324, retro_tbel_4307, retro_tbel_823,
Tursiops truncatus	ENSTTRG00000001742	3 retrocopies	retro_ttru_46, retro_ttru_845, retro_ttru_997,