RetrogeneDB ID: retro_mmus_1381

Retrocopy location

• Organism: Mouse (Mus musculus)
• Coordinates: 15:8529360..8529591(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMUSG00000078850
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: Macrod2
• Ensembl ID: ENSMUSG00000068205
• Aliases: Macrod2, 1110033L15Rik, 2610107G07Rik, 2900006F19Rik
• Description: MACRO domain containing 2 [Source:MGI Symbol;Acc:MGI:1920149]

Sequence

>retro_mmus_1381
ATGTACCCCAGCAACAAGAAGAAAAAGGTGTGGAGAGCAAAGAAAGAATGTTTGCTGAAGATGACCTTAGAGGAGAGACG
CAAAGAATACATAAGGGACTATGTTTCTCTGAGCACCATTCTATCATGGAAGGAAGAGATGAAGAGCAAAGGCCAAAATG
GTGGATGCATCCCTAATGGTTGGAGAAATGGTGGAGAATGTCATGGGAGAGAGAACCGGCAGATCGTTGCC

Alignment

ORF - retro_mmus_1381 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 90.91 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MYPSNKKKKVWREEKERLLKMTLEERRKEYIRDYVSLSTILSWKEEMKSKGQNDGCIPNGWRNGGECHGR
          MYPSNKKKKVWR..KE.LLKMTLEERRKEYIRDYVSLSTILSWKEEMKSKGQN.GCIPNGWRNGGECHGR
Retrocopy MYPSNKKKKVWRAKKECLLKMTLEERRKEYIRDYVSLSTILSWKEEMKSKGQNGGCIPNGWRNGGECHGR

Parental  EHLQILA
          E..QI.A
Retrocopy ENRQIVA

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	48.17 RPM
SRP007412_cerebellum	0.04 RPM	28.57 RPM
SRP007412_heart	0.00 RPM	3.92 RPM
SRP007412_kidney	0.00 RPM	58.52 RPM
SRP007412_liver	0.00 RPM	2.35 RPM
SRP007412_testis	0.00 RPM	21.41 RPM

ChIP-Seq

RNA Polymerase II actvity near the 5' end of retro_mmus_1381 was not detected

EST

No EST(s) were mapped for retro_mmus_1381 retrocopy.

TSS

No TSS is located nearby retro_mmus_1381 retrocopy 5' end.

Lab

retro_mmus_1381 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmus_1381 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
Mus musculus	ENSMUSG00000027865	1 retrocopy	retro_mmus_2225,
Mus musculus	ENSMUSG00000068205	1 retrocopy	retro_mmus_1381 ,