RetrogeneDB ID: retro_mmul_815

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: 11:65131695..65132050(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MRPL21
• Ensembl ID: ENSMMUG00000010124
• Aliases: None
• Description: mitochondrial ribosomal protein L21 [Source:HGNC Symbol;Acc:14479]

Sequence

>retro_mmul_815
ATTGCCACGGGGCAGTATGGCAGGCTTTTTCCCATGGTGCATTTTGCCAGCCACCAGTTGAAGGTGGCCTCTGAAGATCT
TATCTTAATTGGAAATGAACTAGACCTTGCATGTGGAGAGAGAATTCTACTGGAGAAGGTCCTACTGGTTGGGGCAGACG
ACTTCATGCTGCTTGGCAAGCCACTCCTCAGAAAGGATCTTGTTTGAGTAGAAGCCACAGTCATTGAGAAGACAGAAATA
TGGCCAAGAGTCATTATGAGATTTAGGAAAAGGAAAAGCTTCAAGAAGAAATAATTCATTGTGACCCCTCAGACCGTCCT
CCAGATAAACAGCATTGGAGATTGCTCAATGTTTG

Alignment

ORF - retro_mmul_815 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 83.19 %
• Parental protein coverage: 56.46 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  IATGQYGRLFAVVHFASRQWKVTSEDLILIGNELDLACGDRIRLEKVLLVGADNFTLLGKPLLGKDLVRV
          IATGQYGRLF..VHFAS.Q.KV.SEDLILIGNELDLACG.RI.LEKVLLVGAD.F.LLGKPLL.KDLV.V
Retrocopy IATGQYGRLFPMVHFASHQLKVASEDLILIGNELDLACGERILLEKVLLVGADDFMLLGKPLLRKDLV*V

Parental  EATVIEKTESWPRIIMRFRKRKNFKKKRIVVTPQTVLRINSI-EIAPCL
          EATVIEKTE.WPR.IMRFRKRK.FKKK...VTPQTVL.INSI.EIA.CL
Retrocopy EATVIEKTEIWPRVIMRFRKRKSFKKK*FIVTPQTVLQINSI>EIAQCL

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	10.76 RPM
SRP007412_brain_prefrontal_cortex	0.00 RPM	18.48 RPM
SRP007412_cerebellum	0.00 RPM	10.33 RPM
SRP007412_heart	0.00 RPM	17.90 RPM
SRP007412_kidney	0.00 RPM	12.79 RPM
SRP007412_liver	0.00 RPM	6.61 RPM
SRP007412_testis	0.00 RPM	14.66 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_815 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_815 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_815 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

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

Species	Parental gene accession	Retrocopies number
Macaca mulatta	ENSMMUG00000010124	1 retrocopy	retro_mmul_815 ,
Mus musculus	ENSMUSG00000024829	1 retrocopy	retro_mmus_3280,
Tupaia belangeri	ENSTBEG00000017030	1 retrocopy	retro_tbel_2171,