RetrogeneDB ID: retro_mmus_2382

Retrocopy location

• Organism: Mouse (Mus musculus)
• Coordinates: 4:101875346..101875998(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMUSG00000081121
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: Grb2
• Ensembl ID: ENSMUSG00000059923
• Aliases: Grb2, AA408164, Ash
• Description: growth factor receptor bound protein 2 [Source:MGI Symbol;Acc:MGI:95805]

Sequence

>retro_mmus_2382
ATGGAAGCCATCGCCAAATATGACTTCAAAGCTACTGCTGACGATGAGCTGAGCTTCAAAAGGGGGGGACATCCTTAAGG
TTTTGAATGAAGAATGTGACCAGAACTGGTATAAGGCAGACCTCAATGGGAAAGATGGCTTCATCCCCAAGAATTACATA
GAAATGAAACCACATCCGTGTTTTTTTGGCAAAATCCCCAGAGCCAAGGCAGAAGAAATGCTCAGCAAATAGCGGCATGA
CGGGGCCTTCCTGATCCGAGAGAGCGAGAGCGCTCCTGGGGACTTCTCCCTGTCTGTCAAGTTTGGAAATGATGTGCAGG
ACTTCAGGGTGCTCCGTGATGGAGCCGGGAAGTATTTCCTGTCGGTGGTGAAGTTTAATTCTTTGAATGAGCTGGTAGAT
TACCACAGATCAACATCCGTGTCCAGGAACCAGCAGATATTCTTACGGGACATAGAACAGATGCCACAGCAGCCAACCTA
CGTCCAGGCGCTCTTCGACTTTGACCCCCAGGAGGACTGCGAGCTGGGCTTTCGCAGAGGAGACTTCATTCATGTCATGG
ATAACTCAGATCCCAATTGGTGGAAAGGGGCCTGCCACGGGCAGACCGGCATGTTTCCCCGCAATTATGTCACCCCAGTG
AACCGGAACGTC

Alignment

ORF - retro_mmus_2382 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 96.33 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MEAIAKYDFKATADDELSFKRG-DILKVLNEECDQNWYKAELNGKDGFIPKNYIEMKPHPWFFGKIPRAK
          MEAIAKYDFKATADDELSFKRG.DILKVLNEECDQNWYKA.LNGKDGFIPKNYIEMKPHP.FFGKIPRAK
Retrocopy MEAIAKYDFKATADDELSFKRG>DILKVLNEECDQNWYKADLNGKDGFIPKNYIEMKPHPCFFGKIPRAK

Parental  AEEMLSKQRHDGAFLIRESESAPGDFSLSVKFGNDVQHFKVLRDGAGKYFLWVVKFNSLNELVDYHRSTS
          AEEMLSK.RHDGAFLIRESESAPGDFSLSVKFGNDVQ.F.VLRDGAGKYFL.VVKFNSLNELVDYHRSTS
Retrocopy AEEMLSK*RHDGAFLIRESESAPGDFSLSVKFGNDVQDFRVLRDGAGKYFLSVVKFNSLNELVDYHRSTS

Parental  VSRNQQIFLRDIEQMPQQPTYVQALFDFDPQEDGELGFRRGDFIHVMDNSDPNWWKGACHGQTGMFPRNY
          VSRNQQIFLRDIEQMPQQPTYVQALFDFDPQED.ELGFRRGDFIHVMDNSDPNWWKGACHGQTGMFPRNY
Retrocopy VSRNQQIFLRDIEQMPQQPTYVQALFDFDPQEDCELGFRRGDFIHVMDNSDPNWWKGACHGQTGMFPRNY

Parental  VTPVNRNV
          VTPVNRNV
Retrocopy VTPVNRNV

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	0.21 RPM	98.40 RPM
SRP007412_cerebellum	0.13 RPM	106.38 RPM
SRP007412_heart	0.06 RPM	62.26 RPM
SRP007412_kidney	0.02 RPM	46.41 RPM
SRP007412_liver	0.03 RPM	38.18 RPM
SRP007412_testis	0.00 RPM	7.87 RPM

ChIP-Seq

RNA Polymerase II actvity near the 5' end of retro_mmus_2382 was not detected

EST

No EST(s) were mapped for retro_mmus_2382 retrocopy.

TSS

No TSS is located nearby retro_mmus_2382 retrocopy 5' end.

Lab

retro_mmus_2382 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmus_2382 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 2 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Mus musculus	ENSMUSG00000032475	1 retrocopy	retro_mmus_3068,
Mus musculus	ENSMUSG00000059923	2 retrocopies	retro_mmus_2018, retro_mmus_2382 ,