RetrogeneDB ID: retro_mmul_1249

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: 16:18338774..18339032(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MMU.9638
• Ensembl ID: ENSMMUG00000007039
• Aliases: None
• Description: coactosin-like protein [Source:RefSeq peptide;Acc:NP_001248084]

Sequence

>retro_mmul_1249
ATGGCCACCAAGATTGACAAAGAGGCTTGCCGGGAGGCCTACAACCTAGCACAAGACGACAGATTGGCCGTCATCTGGGT
GACTTTTAAATATGATGGCTCCATCATCGTCCCTGTCAGGCAAGGAGCAGAATACCAGCACTTCATCCTGCAGCGTACAG
ACGAGGTCTGGTTGCTTGCCTTCGTGTGTGTCACCACAGGGGATGCCATGAGCAGGAGGTCCATGTTTGCCCTCATCAGG
TAGATTGGCAAGAACGTC

Alignment

ORF - retro_mmul_1249 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 76.74 %
• Parental protein coverage: 60.56 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MATKIDKEACRAAYNLVRDDGSAVIWVTFKYDGSTIVPGEQGAEYQHFIQQCTDDVRLFAFVRFTTGDAM
          MATKIDKEACR.AYNL..DD..AVIWVTFKYDGS.IVP..QGAEYQHFI.Q.TD.V.L.AFV..TTGDAM
Retrocopy MATKIDKEACREAYNLAQDDRLAVIWVTFKYDGSIIVPVRQGAEYQHFILQRTDEVWLLAFVCVTTGDAM

Parental  SKRSKFALITWIGENV
          S.RS.FALI..IG.NV
Retrocopy SRRSMFALIR*IGKNV

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	16.25 RPM
SRP007412_brain_prefrontal_cortex	0.00 RPM	30.54 RPM
SRP007412_cerebellum	0.00 RPM	22.21 RPM
SRP007412_heart	0.00 RPM	6.95 RPM
SRP007412_kidney	0.00 RPM	97.53 RPM
SRP007412_liver	0.00 RPM	34.60 RPM
SRP007412_testis	0.90 RPM	28.80 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_1249 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_1249 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_1249 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 2 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000004056	4 retrocopies	retro_cjac_1182, retro_cjac_2171, retro_cjac_2172, retro_cjac_530,
Macaca mulatta	ENSMMUG00000007039	1 retrocopy	retro_mmul_1249 ,