RetrogeneDB ID: retro_mmur_1101

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: scaffold_2225:75122..75782(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CHMP4A
• Ensembl ID: ENSMICG00000001732
• Aliases: None
• Description: charged multivesicular body protein 4A [Source:HGNC Symbol;Acc:20274]

Sequence

>retro_mmur_1101
ATGTCGGTGTTCGGGAAGCTGTTAGGGGCTGGAGGGGGTAAGGCCAGCAAGGGCGGCCCAACCCCCCAGGAGGCCATCCA
GCCGCTCCGGGACACGGAGGAGATGTTAAGCAAGAAGCAGGAGTTCCTGGAGAAGAAGATCGAGCAGGAACTGATGGCCG
CTAAGAAGCATGGCACCAAAAACAAGCACGCGGCCCTCCAGGCACTGAAGCGCACGAAGAGGTATGAGAAGCAGCTGGCA
CAGATTGATGGCACGTTATCAACCATCGAGTTCCAGCAGGAGGCCCTGGAGAACGCCAACACCAACACTGAGGTGCTCAA
GAACATGGGCTATGCGGCCAAGGCCATGAAGGCTGCCCACCACAACATGGACATCGATAAAGTTGATGAGTTAATGCAGG
ACATTGCTGACCAGCAGGAACTTGCAGAGGAGATTTCAACAGCAATTTCAAAACCTGTAGGGTTTGGAGAAGAGTTTGAC
GAGGATGAACTCATGGCAGAATTAGAAGAACTAGAACAGGAGGAACTAGACAAGAATCTGCTGGAAATCAGTGGACCCGA
AACAGTCCCTCTACCAAATGTTCCCTCTATAGCCCTACCATCAAAACCCGCCAAGAAGAAGGAGGAGGAGGACGACGACA
TGAAGGAATTAGAGAACTGG

Alignment

ORF - retro_mmur_1101 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 62.78 %
• Parental protein coverage: 83.02 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MSGLGRLFGKG--KKEKG-PTPEEAIQKLKETEKILIKKQEFLEQKIQQELQTAKKHGTKNKRAALQALR
          MS..G.L.G.G..K..KG.PTP.EAIQ.L..TE..L.KKQEFLE.KI.QEL..AKKHGTKNK.AALQAL.
Retrocopy MSVFGKLLGAGGGKASKGGPTPQEAIQPLRDTEEMLSKKQEFLEKKIEQELMAAKKHGTKNKHAALQALK

Parental  RKKRLEQQLAQTDGTLSTLEFQREAIENATTNAEVLRTMELAARGMKKAYQDMDIDKVDELMADITEQQE
          R.KR.E.QLAQ.DGTLST.EFQ.EA.ENA.TN.EVL..M..AA..MK.A...MDIDKVDELM.DI..QQE
Retrocopy RTKRYEKQLAQIDGTLSTIEFQQEALENANTNTEVLKNMGYAAKAMKAAHHNMDIDKVDELMQDIADQQE

Parental  VAQQISDAISRPVGFGDDVDEDELLEELEELEQEELAQELLNVSDKEEKPPVKLPSVPSTHLPAGPAPKA
          .A..IS.AIS.PVGFG...DEDEL..ELEELEQEEL...LL..S..E..P...LP.VPS..LP..PA.K.
Retrocopy LAEEISTAISKPVGFGEEFDEDELMAELEELEQEELDKNLLEISGPETVP---LPNVPSIALPSKPAKKK

Parental  DEDEEALKQLAEW
          .E.....K.L..W
Retrocopy EEEDDDMKELENW

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_1101 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_1101 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 6 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000254505	1 retrocopy	retro_hsap_2284,
Gorilla gorilla	ENSGGOG00000016091	1 retrocopy	retro_ggor_1697,
Microcebus murinus	ENSMICG00000001732	1 retrocopy	retro_mmur_1101 ,
Macaca mulatta	ENSMMUG00000012476	2 retrocopies	retro_mmul_1035, retro_mmul_1694,
Pongo abelii	ENSPPYG00000005691	1 retrocopy	retro_pabe_1937,
Sorex araneus	ENSSARG00000008328	1 retrocopy	retro_sara_530,