RetrogeneDB ID: retro_mmul_2635

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: X:123591036..123591607(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: FBLIM1
• Ensembl ID: ENSMMUG00000032243
• Aliases: None
• Description: None

Sequence

>retro_mmul_2635
CCAATGAAGGATGCTCACTCCCTCCTCCTGACCTGGACCTCGTCCCACCCCCACCACCGCCCCCTCCGGTGCTCCTGCGT
TCTGAAGAAGAGACTCCTGTTCCAATGGGGGCCTCACTCATTGCAGACTTAGAGCAGCTGCACCTGCCCCTGTCCCCACT
CCGACCACAGGCCCCGGCAGAAGGACCTTCAGTCCAGCCTGGACCCCGTCCCCTCATGCCTGGGGAGGAAGAGCTTTCGC
CTCCCCGAGCAGAGCCTGTTGAGAGATAGTTGTCCACAGACATCTGTGCCTTCTGCCACAAAACGTGTCCCCCTAGGAGC
TGACTGTGGAGGCCATGAAGAGGCCGTACCATGCCCAGTGCTTCACGTGGCACACCTGCCTCCGCCAGCTGGCTGGGCAG
AGCTTCTACCAGGATGGGTGACCCCTCTGTGAACTCTGCTACCAGGACACGCTGGAGAAGTGCGGCAAGTGTGGTGAGAT
GGTCTGGGAGCACATCATCAGGGCCCTGGGCCAGGCCTTCCACCCCTCCTGCTTCATGTGTGTGACCTGCACCCGGTGCA
TCGAAGATGAG

Alignment

ORF - retro_mmul_2635 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 77.55 %
• Parental protein coverage: 51.2 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  PVLDGEDVL-PDLDLLPPPPPPPPVLLPSEEEAPAPMGTSLIADLQQLHLSPPPPPPPPQAPAEGPSVQP
          P..D....L.PDLDL.PPPPPPPPVLL.SEEE.P.PMG.SLIADL.QLHL..P..P..PQAPAEGPSVQP
Retrocopy PMKDAHSLL<PDLDLVPPPPPPPPVLLRSEEETPVPMGASLIADLEQLHL--PLSPLRPQAPAEGPSVQP

Parental  G--PLRPVEEELPPPPAEPVEKEASTDICAFCHKT-VSPRELAVEAMKRQYHAQCFTCRTCRRQLAGQSF
          G..PL.P.EEEL.PP.AEPVE...STDICAFCHKT.VSP.EL.VEAMKR.YHAQCFT..TC.RQLAGQSF
Retrocopy GPRPLMPGEEELSPPRAEPVER*LSTDICAFCHKT<VSP*ELTVEAMKRPYHAQCFTWHTCLRQLAGQSF

Parental  YQKDGRPLCEPCYQDTLEKCGKCGEVVQDHIIRALGQAFHPSCFTCVTCARCIGDE
          YQ.DG.PLCE.CYQDTLEKCGKCGE.V..HIIRALGQAFHPSCF.CVTC.RCI.DE
Retrocopy YQ-DG*PLCELCYQDTLEKCGKCGEMVWEHIIRALGQAFHPSCFMCVTCTRCIEDE

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	1.01 RPM
SRP007412_brain_prefrontal_cortex	0.00 RPM	2.30 RPM
SRP007412_cerebellum	0.00 RPM	1.36 RPM
SRP007412_heart	0.00 RPM	22.73 RPM
SRP007412_kidney	0.00 RPM	7.86 RPM
SRP007412_liver	0.00 RPM	1.90 RPM
SRP007412_testis	0.00 RPM	1.88 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_2635 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_2635 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_2635 has 4 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_4898
Pan troglodytes	retro_ptro_3266
Gorilla gorilla	retro_ggor_3058
Pongo abelii	retro_pabe_3809

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Parental genes homology:

Parental genes homology involve 8 parental genes, and 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000018725	1 retrocopy	retro_btau_1013,
Homo sapiens	ENSG00000162458	2 retrocopies	retro_hsap_4898, retro_hsap_778,
Gorilla gorilla	ENSGGOG00000015190	2 retrocopies	retro_ggor_3058, retro_ggor_645,
Macaca mulatta	ENSMMUG00000021252	1 retrocopy	retro_mmul_2377,
Macaca mulatta	ENSMMUG00000032243	2 retrocopies	retro_mmul_1095, retro_mmul_2635 ,
Pongo abelii	ENSPPYG00000001837	2 retrocopies	retro_pabe_3809, retro_pabe_751,
Pan troglodytes	ENSPTRG00000000208	2 retrocopies	retro_ptro_3266, retro_ptro_544,
Pteropus vampyrus	ENSPVAG00000009000	1 retrocopy	retro_pvam_415,