RetrogeneDB ID: retro_mmur_1580

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: scaffold_86702:7..834(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMICG00000009803
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: FAM214B
• Ensembl ID: ENSMICG00000005528
• Aliases: None
• Description: family with sequence similarity 214, member B [Source:HGNC Symbol;Acc:25666]

Sequence

>retro_mmur_1580
CCAGGCCCCTGCCCCACCAAGCGAAGGCTGCTCCCTGCTGGAGACGCCCCAGATGTCAGCTCTGAGAATGAGGGGCAGCC
CCTCGGATGTGTCGGGGGAACCCTGGGCCACCCTCCTGCTGCCAACCGTTCTGATGCCAAAGCCACACCCTTCTGGAGCC
ACCTGCTGCCCGGGGCCCAAGGAGCCTGTTTTGGACCCAACAGACTGCAGTCCCATGGGGCAGTGGCTGAAAGGTACCCG
TCACCTGAAGCTGAGCTCCCTTGAAGCCTCCAGAAGGGACCAGGCCTGCTGAGCCTCCCCAGGGCCTCCGCCCCCTCTCC
CCGCGTTCCTACCCCTGCTGTCAGCCATACCTTGCTGGGCAACTTGAGGAATCATTGCTGCCAGGACAAGGGCGATTTGC
ACCATCTGGCCACATCAAGGGCTTCACAGCAGAGATTGGAGCTTGTGGGTCCTACTGCCCCCAGCATGTCACGCTGCCTG
TCACTGTCACCTTTTTTGATGTTTCTAAGCAAAATGCCCCAGCCCCCTTCCTGGGCGTCGTGGACCTCCCCCTCGGGAGG
AAGGGTTACAGCGTGCCCCAAGTGGGCACCATCCAAGTGACCTTGTTTAACCCCAACCAGACTGTGGTGAAGATGTTCCT
CGTGACCTTTGACTTCTCGGACATGCCTGCTACCCACATGACCTTGCGCCATCGCCTCTTTTTGGTGCCTGTGGGTGAGG
AGGGGAATGCTAGCCCCACCCTCCGCCTCCTCTGCTACTCGCTGCACCTCAGGTTCCCAAGCTCCAGCTCAGGCCGCTTA
AGCCTGCATGGAGATACCCACCTGCTT

Alignment

ORF - retro_mmur_1580 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.16 %
• Parental protein coverage: 50.56 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 5

Retrocopy - Parental Gene Alignment:

Parental  PGPCPTKRRLLPAGEAPDVSSEDEGP-APRRRRG-TLGHPPAANSSDAKATPFWSHLLPG-PKEPVLDPT
          PGPCPTKRRLLPAG.APDVSSE.EG..APR..RG.TLGHPPAAN.SDAKATPFWSHLLPG.PKEPVLDPT
Retrocopy PGPCPTKRRLLPAGDAPDVSSENEGQ<APRMCRG>TLGHPPAANRSDAKATPFWSHLLPG>PKEPVLDPT

Parental  DCSPMGRRLKGARRLKLSSLR-SLRKGPGLLSLPSASP----VPTRAVSRTLLGNF-EESLL--RGRFAP
          DCSPMG..LKG.R.LKLSSL..SL.KGPGLLSLP.AS.....VPT.AVS.TLLGN..EESLL...GRFAP
Retrocopy DCSPMGQWLKGTRHLKLSSLE<SLQKGPGLLSLPRASAPSPRVPTPAVSHTLLGNL<EESLLPGQGRFAP

Parental  SGHIEGFTAEIGASGSYCPQHVTLPVTVTFFDVSEQNAPAPFLGVVDLNPLGRKGYSVPKVGTIQVTLFN
          SGHI.GFTAEIGA.GSYCPQHVTLPVTVTFFDVS.QNAPAPFLGVVDL.PLGRKGYSVP.VGTIQVTLFN
Retrocopy SGHIKGFTAEIGACGSYCPQHVTLPVTVTFFDVSKQNAPAPFLGVVDL-PLGRKGYSVPQVGTIQVTLFN

Parental  PNQTVVKMFLVTFDFSDMPAAHMTFLRHRLFLVPVGEEGNASPTRRLLCYLLHLRFRSSRSGRLSLHGDI
          PNQTVVKMFLVTFDFSDMPA.HMT.LRHRLFLVPVGEEGNASPT.RLLCY.LHLRF.SS.SGRLSLHGD.
Retrocopy PNQTVVKMFLVTFDFSDMPATHMT-LRHRLFLVPVGEEGNASPTLRLLCYSLHLRFPSSSSGRLSLHGDT

Parental  RLL
          .LL
Retrocopy HLL

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_1580 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_1580 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 8 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000009210	1 retrocopy	retro_cjac_1357,
Homo sapiens	ENSG00000005238	1 retrocopy	retro_hsap_2831,
Gorilla gorilla	ENSGGOG00000003218	1 retrocopy	retro_ggor_1966,
Microcebus murinus	ENSMICG00000005528	1 retrocopy	retro_mmur_1580 ,
Macaca mulatta	ENSMMUG00000011862	1 retrocopy	retro_mmul_1504,
Nomascus leucogenys	ENSNLEG00000004530	1 retrocopy	retro_nleu_1207,
Pongo abelii	ENSPPYG00000019101	1 retrocopy	retro_pabe_2200,
Pan troglodytes	ENSPTRG00000020904	1 retrocopy	retro_ptro_1919,