RetrogeneDB ID: retro_mmul_1397

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: 19:36453798..36454225(-)
• Located in intron of: ENSMMUG00000018441

Retrocopy information

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

Parental gene information

• Parental gene symbol: FKBP2
• Ensembl ID: ENSMMUG00000012945
• Aliases: None
• Description: peptidyl-prolyl cis-trans isomerase FKBP2 precursor [Source:RefSeq peptide;Acc:NP_001253744]

Sequence

>retro_mmul_1397
ATGAGGCTGAGCTGGGTCCGGGTCCTGACAGTACTGTCCATCTGCCTGAGCGCCGTGGCCACGGCCACGGGGGCCAAGGG
CAAAAGGAAGCTGTAGATCGGGGTCAAGAAGCGGGTGGACCACTGTCCCATCAAATCGCATAAAGGGGATGTCCTGCACA
TGCACTACACGGGGAAGCTGGAAGATGGGACAGAGTTTGACAGCAGCCTGCCCCAGAACCAGCCCTTTGTCTTCTCCCTT
GGCATAGGCCAGGTCATCAAGGGCTGGGACCAGGGGCTGCCAGGGATGTGTGAGGGGGGAAAAGCGCAAGCTGGTGATCC
CATCCGAGCTGGGGTATGGAGAGCGGGGAGCTCCCCCAAAGATTCCAGGCGGTGCAACCCTGGTGTTCGAGGTGGAGCTG
CTCAAAATCGAGCGACGATCTGAGCTA

Alignment

ORF - retro_mmul_1397 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 95.8 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MRLSWVRVLTVLSICLSAVATATGAEGKRKLQIGVKKRVDHCPIKSRKGDVLHMHYTGKLEDGTEFDSSL
          MRLSWVRVLTVLSICLSAVATATGA.GKRKL.IGVKKRVDHCPIKS.KGDVLHMHYTGKLEDGTEFDSSL
Retrocopy MRLSWVRVLTVLSICLSAVATATGAKGKRKL*IGVKKRVDHCPIKSHKGDVLHMHYTGKLEDGTEFDSSL

Parental  PQNQPFVFSLGTGQVIKGWDQGLLGMCE-GEKRKLVIPSELGYGERGAPPKIPGGATLVFEVELLKIERR
          PQNQPFVFSLG.GQVIKGWDQGL.GMCE.GEKRKLVIPSELGYGERGAPPKIPGGATLVFEVELLKIERR
Retrocopy PQNQPFVFSLGIGQVIKGWDQGLPGMCE>GEKRKLVIPSELGYGERGAPPKIPGGATLVFEVELLKIERR

Parental  SEL
          SEL
Retrocopy SEL

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	0.11 RPM	18.04 RPM
SRP007412_brain_prefrontal_cortex	0.00 RPM	37.36 RPM
SRP007412_cerebellum	0.00 RPM	14.85 RPM
SRP007412_heart	0.18 RPM	25.67 RPM
SRP007412_kidney	0.35 RPM	24.88 RPM
SRP007412_liver	0.04 RPM	37.88 RPM
SRP007412_testis	0.11 RPM	58.95 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_1397 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_1397 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_1397 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 6 parental genes, and 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Anolis carolinensis	ENSACAG00000000758	1 retrocopy	retro_acar_126,
Bos taurus	ENSBTAG00000013606	3 retrocopies	retro_btau_1418, retro_btau_69, retro_btau_916,
Callithrix jacchus	ENSCJAG00000018124	2 retrocopies	retro_cjac_2030, retro_cjac_3853,
Cavia porcellus	ENSCPOG00000002928	1 retrocopy	retro_cpor_39,
Macaca mulatta	ENSMMUG00000012945	1 retrocopy	retro_mmul_1397 ,
Rattus norvegicus	ENSRNOG00000021153	1 retrocopy	retro_rnor_1034,