RetrogeneDB ID: retro_meug_2152

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold9553:23822..24374(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: PGAM2
• Ensembl ID: ENSMEUG00000012920
• Aliases: None
• Description: phosphoglycerate mutase 2 (muscle) [Source:HGNC Symbol;Acc:8889]

Sequence

>retro_meug_2152
ATACTAGATGCCATTGACCAGATGTGGTTGCTTATAGTGAGGACTTGGCACCTCAATGAGCAGCACAATGGAGGTCTGAC
AGGCCTCAACAAAGCAGAGACTGCTGCTAAGCATGGTAAAGCTCAGGTGAAGATCTGGTGACGATCCTACGACATTCCAC
CACCTCCGATGGAACTTGACCACCCCTTCTACAGCAACATCAGCAAGGACTGTTGCTATGCAGATCTGACTGAGGATCAG
CTGCCTTCCTGTGAGAGCCTGAAAGACACCATTGCCTGGGCTCTACCATTCTGGAATGAGGAAATGGTCCCCCAGATCAA
GGAAGGCAAACGTGTTCTGATTGCAGCCCATAGCAATAGTCTTCGAGGGATTATCAAACATCTTGAAAGTCTGTCTGAAG
AAGCAATTATGGAGCTGAATCTGCCCACTGGCATTCCTATCGTGTATGCGTTGGACAAGAATCTGAAGCCCATCAAGCCC
ATGCAGTTCCTTGGGGATGAAGAGACTGTGCGCAAAGCCACGGAAGCCGTGGCAGCCCAAGGCAAAGCCAAG

Alignment

ORF - retro_meug_2152 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 77.72 %
• Parental protein coverage: 72.73 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  IMDGIDQMWLPVIRTWRLNERHYGGLTGLNKAETAAKHGEAQVKIWRRSFDIPPPPMDETHPYHAVISKE
          I.D.IDQMWL...RTW.LNE.H.GGLTGLNKAETAAKHG.AQVKIW.RS.DIPPPPM...HP....ISK.
Retrocopy ILDAIDQMWLLIVRTWHLNEQHNGGLTGLNKAETAAKHGKAQVKIW*RSYDIPPPPMELDHPFYSNISKD

Parental  RRYASLKPGELPTCESLKDTIARALPFWNEQIVPQIKSGKRVLIAAHGNSLRGIVKHLEGMSDEAIMELN
          ..YA.L....LP.CESLKDTIA.ALPFWNE..VPQIK.GKRVLIAAH.NSLRGI.KHLE..S.EAIMELN
Retrocopy CCYADLTEDQLPSCESLKDTIAWALPFWNEEMVPQIKEGKRVLIAAHSNSLRGIIKHLESLSEEAIMELN

Parental  LPTGIPIVYELDDHLKPTKPMQFLGDEETVRKAMEAVAAQGKAK
          LPTGIPIVY.LD..LKP.KPMQFLGDEETVRKA.EAVAAQGKAK
Retrocopy LPTGIPIVYALDKNLKPIKPMQFLGDEETVRKATEAVAAQGKAK

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_2152 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_2152 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 7 parental genes, and 14 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000024480	1 retrocopy	retro_dnov_34,
Macropus eugenii	ENSMEUG00000012920	8 retrocopies	retro_meug_1044, retro_meug_1303, retro_meug_1636, retro_meug_1838, retro_meug_202, retro_meug_2152 , retro_meug_251, retro_meug_945,
Otolemur garnettii	ENSOGAG00000006713	1 retrocopy	retro_ogar_164,
Procavia capensis	ENSPCAG00000002181	1 retrocopy	retro_pcap_13,
Rattus norvegicus	ENSRNOG00000013532	1 retrocopy	retro_rnor_2889,
Tupaia belangeri	ENSTBEG00000004587	1 retrocopy	retro_tbel_3939,
Drosophila melanogaster	FBgn0014869	1 retrocopy	retro_dmel_57,