RetrogeneDB ID: retro_mmul_1196

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: 15:74739280..74739811(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: BCL2L12
• Ensembl ID: ENSMMUG00000003926
• Aliases: None
• Description: None

Sequence

>retro_mmul_1196
GGCTTTGAAGAGCTGGGGCTCCGGGAAGACACGCTGAGGGTCCTAGCTGCCTTCCTCAGGCGTGGTGAGGCTGCCGGGTC
TCCTGTTCCAAGTCCACTCAGCCCTGCCCAAGAAGAGCCAACAGACTTCCTGAGCCGCCTTCGAAGATGTCTTCCCTGCT
CCCTGGGGCGAGGAGCAGCACCCGCTGAGTCCCCTCGGCCTTGCTCTCTGCCCATCCGCCCCTGCTATGGTTCAGAGCCT
GGCCCAGCTACTCCAGACTTCTAATCCTTGGTGATTCAGCGGCTGCAACAGCTGGTCCAAGAGCAACTGAAATCTCCGCC
TAGTCCAGAATTACGGGGTCCCTCACCCACAGAGAAGGAGGCCATACCGCGGAGGCTGGTGGCCCTGCTGGAGGAGGAGG
CAGAAGTCATTAACCAGAAGCTGGCCTCGGACCCCGCCCGGCACGGCAAGCTGGTCCGCCTGTCCTCCGGCTCTTTTGCC
CGCCTGGTGGAGCTGTTCTGTAGCCGGGAGGACAACTCTCACCAAGCCAAG

Alignment

ORF - retro_mmul_1196 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.89 %
• Parental protein coverage: 71.2 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  GSEELGLREDTLRVLAAFLRRGEAAGSPVPTPLRSPAQEEPTDFLSRLRRCLPCSLGRGAAPPESPRPCS
          G.EELGLREDTLRVLAAFLRRGEAAGSPVP.PL.SPAQEEPTDFLSRLRRCLPCSLGRGAAP.ESPRPCS
Retrocopy GFEELGLREDTLRVLAAFLRRGEAAGSPVPSPL-SPAQEEPTDFLSRLRRCLPCSLGRGAAPAESPRPCS

Parental  LPIRPCYGSEPGPATPDFYALVAQRLEQLVQEQLKSPPSPELQGPPPTEKEAILRRLVALLEEEAEVINQ
          LPIRPCYGSEPGPATPDF..LV.QRL.QLVQEQLKSPPSPEL.GP.PTEKEAI.RRLVALLEEEAEVINQ
Retrocopy LPIRPCYGSEPGPATPDF*SLVIQRLQQLVQEQLKSPPSPELRGPSPTEKEAIPRRLVALLEEEAEVINQ

Parental  KLASDPVLRSKLVRLSSGSFARLVELFCSREDNSHPSR
          KLASDP....KLVRLSSGSFARLVELFCSREDNSH...
Retrocopy KLASDPARHGKLVRLSSGSFARLVELFCSREDNSHQAK

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	0.11 RPM
SRP007412_brain_prefrontal_cortex	1.11 RPM	0.48 RPM
SRP007412_cerebellum	0.13 RPM	0.39 RPM
SRP007412_heart	0.18 RPM	2.06 RPM
SRP007412_kidney	0.00 RPM	1.64 RPM
SRP007412_liver	0.00 RPM	2.18 RPM
SRP007412_testis	0.19 RPM	19.15 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_1196 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_1196 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_1196 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
Macaca mulatta	ENSMMUG00000003926	1 retrocopy	retro_mmul_1196 ,
Rattus norvegicus	ENSRNOG00000020486	2 retrocopies	retro_rnor_1926, retro_rnor_726,