RetrogeneDB ID: retro_meug_682

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold160512:448..951(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MRPL39
• Ensembl ID: ENSMEUG00000002198
• Aliases: None
• Description: mitochondrial ribosomal protein L39 [Source:HGNC Symbol;Acc:14027]

Sequence

>retro_meug_682
TTTAAAAATAAAGATCCCCAAGAAATGAACAAGGCCTGCTGGCATTCTGGGGCCACAATGATGGGCTGTATGCTAATGAA
GGCATTCAAAGATGAATACACAGTTACTACAGTCAGAGTTCCAGAAATCCAGTGACCTCTGGAGCCTTCTGCTATGTCAT
CATTTTGGATAAAACACTTGGTGATTGAATACCAACAACTGAACACGGGTATTCTTTCACAAAGAATGTTCAAGCTTTAA
TTAATAAAAGTCTTCCATTTAATACTTCAAAATTGAAGCAAAAGTGGCATTAGAAATCTCCCAATGTAACAAATACAAAT
GCCATTTAATGAAGACAAAGCATTTCAGGATCCTGGGAGAAAAGGAAAACGACTCAGATCTGGAGACTCCCGGGATATTA
GTGAGGGTCCTTTTGTTTCAAGGCCAAGTATTTACTTCCTGTATAAACGGGTAGTAGTTCACAATTTCCAGTGGTCCAGT
GAGATCAGCTACAAGGATTCCAG

Alignment

ORF - retro_meug_682 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 56.07 %
• Parental protein coverage: 59.93 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  FKDEDPEEVNKAYWRSCAMMMGCVIERAFKDEYTVTLVRVPEI-PVIAGAFCYDVILDKRLDEWIPTPES
          FK..DP.E.NKA.W.S.A.MMGC....AFKDEYTVT.VRVPEI.PV..GAFCY..ILDK.L...IPT.E.
Retrocopy FKNKDPQEMNKACWHSGATMMGCMLMKAFKDEYTVTTVRVPEI<PVTSGAFCYVIILDKTLGD*IPTTEH

Parental  LRSFTKDAHALISRDLPFET-LDVEAKLALEIFQHNKYK-MQFIEERASENPEGIVKLCRFGDFVDVSEG
          ..SFTK...ALI...LPF.T....EAK.ALEI.Q.NKYK.M.F.E..A...P....K..R.GD..D.SEG
Retrocopy GYSFTKNVQALINKSLPFNT<FKIEAKVALEISQCNKYK<MPFNEDKAFQDPGRKGKRLRSGDSRDISEG

Parental  PLISRTGICFQYEVSAVHNLQGA-QLDHLRRFQ
          P..SR..I.F.Y....VHN.Q...Q.D.L..FQ
Retrocopy PFVSRPSIYFLYKRVVVHNFQWS<Q*DQLQGFQ

Legend:

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

Expression

RNA-Seq

Macropus eugenii was not studied using RNA-Seq expression data.

ChIP-Seq

Macropus eugenii was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_meug_682 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_682 was not experimentally validated.

Homology

Retrocopy orthology:

Macropus eugenii 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 4 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Felis catus	ENSFCAG00000022879	2 retrocopies	retro_fcat_1817, retro_fcat_300,
Macropus eugenii	ENSMEUG00000002198	1 retrocopy	retro_meug_682 ,
Myotis lucifugus	ENSMLUG00000015959	1 retrocopy	retro_mluc_2403,
Tupaia belangeri	ENSTBEG00000006067	2 retrocopies	retro_tbel_2146, retro_tbel_4725,