RetrogeneDB ID: retro_mmus_463

Retrocopy location

• Organism: Mouse (Mus musculus)
• Coordinates: 1:82822583..82822859(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: Mrps14
• Ensembl ID: ENSMUSG00000058267
• Aliases: None
• Description: mitochondrial ribosomal protein S14 [Source:MGI Symbol;Acc:MGI:1928141]

Sequence

>retro_mmus_463
GCGGTGTCCATGCTAGGCTTGCTGCTGCGGACATTCCGGCAGGCAGTTCCTCCATCAGTGTCAGGTCAAGTTCAAGGTTA
CTATGTAGACTGGAGAATGTTGAGTGATTTGAAGAGACAGAAAATGGCTTATGAATATGCAGATGAGAGGCTTTGGATCA
ATTCGCTCAGAAAGAATACCATTTTGCCAAAGGATCTTCAGGAAATAGCTGGTGATGAAATTGCTGCCCTTCCACGGGAT
AGCTATCCTGTTAGAATCAGAAATCGGTGTGTTATG

Alignment

ORF - retro_mmus_463 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.13 %
• Parental protein coverage: 71.88 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  AASVLGSLLRTFRQAVPPSASGQVRGYYVDWRMLRDLKRRKMAYEYADERLRINSLRKNTILPKDLQEMA
          A.S.LG.LLRTFRQAVPPS.SGQV.GYYVDWRML.DLKR.KMAYEYADERL.INSLRKNTILPKDLQE.A
Retrocopy AVSMLGLLLRTFRQAVPPSVSGQVQGYYVDWRMLSDLKRQKMAYEYADERLWINSLRKNTILPKDLQEIA

Parental  GDEIAALPRDSCPVRIRNRCVM
          GDEIAALPRDS.PVRIRNRCVM
Retrocopy GDEIAALPRDSYPVRIRNRCVM

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	21.52 RPM
SRP007412_cerebellum	0.00 RPM	17.02 RPM
SRP007412_heart	0.06 RPM	26.43 RPM
SRP007412_kidney	0.00 RPM	25.04 RPM
SRP007412_liver	0.00 RPM	19.25 RPM
SRP007412_testis	0.00 RPM	14.00 RPM

ChIP-Seq

RNA Polymerase II actvity near the 5' end of retro_mmus_463 was not detected

EST

No EST(s) were mapped for retro_mmus_463 retrocopy.

TSS

No TSS is located nearby retro_mmus_463 retrocopy 5' end.

Lab

retro_mmus_463 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmus_463 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 5 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000001109	1 retrocopy	retro_btau_149,
Callithrix jacchus	ENSCJAG00000008986	1 retrocopy	retro_cjac_136,
Mus musculus	ENSMUSG00000058267	1 retrocopy	retro_mmus_463 ,
Oryctolagus cuniculus	ENSOCUG00000026497	1 retrocopy	retro_ocun_34,
Tupaia belangeri	ENSTBEG00000003335	1 retrocopy	retro_tbel_1199,