RetrogeneDB ID: retro_mmur_1266

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: scaffold_37680:4079..4601(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: PPIF
• Ensembl ID: ENSMICG00000007086
• Aliases: None
• Description: peptidylprolyl isomerase F [Source:HGNC Symbol;Acc:9259]

Sequence

>retro_mmur_1266
GGCTTTGCAGACGCTGCTGCTTCTCGGAGTCGCCTGCTACCAACCATGGTCTTCGATATGGCCCTCGACGGCGAGCCCTT
GGGCCGTGTCTCCTTTGAGCTATTTGCAGACAAAGTTCCAAAGACAGCAGAAAACTTTCGTGCTCTGAGCACTGGAGAGA
GAGGATTTGGCTATAAGGGTTCCTGCTTTCACAGAATTATTCCAGGCTTTACGTGCCAGGGTGGTGACTTCACACGCCAT
AATGGCACTGGTGGCAAGTCTATCTACGGGGAGAAATTTGAGGATGAGAACTTCATTCTGAAGCATACAGGTCCTGGCAT
CTTGTCCATGGCAAATGCTGGACCCAACACAAATGGTTCCCAGTTTTTCATCTGCACTGCCAAGACGGAGTGGTTGGATG
GCAAGCATGTGGTCTTTGGCAAGGTGAAAGAGGGCATGAATATTGTGGAAGCCATGGAGCGCTTTGGGTCCAGGAATGGC
AAGACCACCAAGAAGATCACCATTGCTGACTGTGGACAAGTC

Alignment

ORF - retro_mmur_1266 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 72.41 %
• Parental protein coverage: 84.06 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  GGARNPSSSSAGNPLVYLDVGADGQPLGRVVLELKADVVPKTAENFRALCTGEKGFGYKGSTFHRVIPSF
          G.A....S.S...P....D...DG.PLGRV..EL.AD.VPKTAENFRAL.TGE.GFGYKGS.FHR.IP.F
Retrocopy GFADAAASRSRLLPTMVFDMALDGEPLGRVSFELFADKVPKTAENFRALSTGERGFGYKGSCFHRIIPGF

Parental  MCQAGDFTNHNGTGGRSIYGSRFPDENFTLKHVGPGILSMANAGPNTNGSQFFICTVKTEWLDGKHVVFG
          .CQ.GDFT.HNGTGG.SIYG..F.DENF.LKH.GPGILSMANAGPNTNGSQFFICT.KTEWLDGKHVVFG
Retrocopy TCQGGDFTRHNGTGGKSIYGEKFEDENFILKHTGPGILSMANAGPNTNGSQFFICTAKTEWLDGKHVVFG

Parental  HVKEGMDVVKKIESFGSKNGKTSKKIVITDCGQL
          .VKEGM..V...E.FGS.NGKT.KKI.I.DCGQ.
Retrocopy KVKEGMNIVEAMERFGSRNGKTTKKITIADCGQV

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Microcebus murinus was not studied using RNA-Seq expression data.

ChIP-Seq

Microcebus murinus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmur_1266 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_1266 was not experimentally validated.

Homology

Retrocopy orthology:

Microcebus murinus does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.

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Parental genes homology:

Parental genes homology involve 9 parental genes, and 19 retrocopies.

Species	Parental gene accession	Retrocopies number
Equus caballus	ENSECAG00000008796	3 retrocopies	retro_ecab_507, retro_ecab_649, retro_ecab_732,
Homo sapiens	ENSG00000108179	1 retrocopy	retro_hsap_1436,
Microcebus murinus	ENSMICG00000007086	8 retrocopies	retro_mmur_1266 , retro_mmur_218, retro_mmur_515, retro_mmur_568, retro_mmur_605, retro_mmur_694, retro_mmur_769, retro_mmur_87,
Nomascus leucogenys	ENSNLEG00000010567	1 retrocopy	retro_nleu_70,
Procavia capensis	ENSPCAG00000009406	1 retrocopy	retro_pcap_275,
Pan troglodytes	ENSPTRG00000002669	1 retrocopy	retro_ptro_979,
Pteropus vampyrus	ENSPVAG00000001713	2 retrocopies	retro_pvam_380, retro_pvam_623,
Tupaia belangeri	ENSTBEG00000015457	1 retrocopy	retro_tbel_1906,
Xenopus tropicalis	ENSXETG00000018981	1 retrocopy	retro_xtro_20,