RetrogeneDB ID: retro_mdom_1486

Retrocopy location

• Organism: Opossum (Monodelphis domestica)
• Coordinates: 5:292039858..292040095(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSMODG00000025743
• Aliases: None
• Description: None

Sequence

>retro_mdom_1486
ATGAGGCTCCTCAGCATATTCCTGCTGCTCTCCGTGGCTCTGTGCTGCTTCTTGGATACTGTTCAAGCTAAAAAATTCCC
CCGAAAGGCTATTTGTCCTTCCAAAATTCCTGGATGCTCAAGACACTATAGACCGATCTGGGGCACTGATGATCGTAGTT
ATGGCAATCACTGTGTTCTGTGTCAGAAAAACAAGAACAGAGAAGTTCAGGTCCTCATCCCAAAATATGGAGAATGC

Alignment

ORF - retro_mdom_1486 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 68.35 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MRILAIFLLLSMALCCFMDTVQAQDFPREATCPPEISGCSRHYKPICGTDGLTYDNQCNLCEENKYRKVQ
          MR.L.IFLLLS.ALCCF.DTVQA..FPR.A.CP..I.GCSRHY.PI.GTD...Y.N.C.LC..NK.R.VQ
Retrocopy MRLLSIFLLLSVALCCFLDTVQAKKFPRKAICPSKIPGCSRHYRPIWGTDDRSYGNHCVLCQKNKNREVQ

Parental  VLIQKYGKC
          VLI.KYG.C
Retrocopy VLIPKYGEC

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
SRP007412_brain	0.00 RPM	0.00 RPM
SRP007412_cerebellum	0.00 RPM	0.00 RPM
SRP007412_heart	0.00 RPM	0.20 RPM
SRP007412_kidney	0.00 RPM	5.27 RPM
SRP007412_liver	0.00 RPM	0.00 RPM
SRP007412_testis	0.00 RPM	0.00 RPM

ChIP-Seq

Monodelphis domestica was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mdom_1486 retrocopy.

TSS

Monodelphis domestica was not studied using FANTOM5 data.

Lab

retro_mdom_1486 was not experimentally validated.

Homology

Retrocopy orthology:

Monodelphis domestica 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 1 parental gene, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Monodelphis domestica	ENSMODG00000025743	2 retrocopies	retro_mdom_1486 , retro_mdom_909,