RetrogeneDB ID: retro_meug_251

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: GeneScaffold_7780:161265..161660(-)
• Located in intron of: ENSMEUG00000002441

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_251
ATCCTGCCACCTCCAATGAGCCTAATCACCCCTTCTACAGCAACATCAGCAAGGACCATCACTAAGCAGATCTGACTGAG
GATCAGCCGCCTCTCTGTGAGAGCCTGAAAGCCACCATAGTTCTACCCTTCTGGAATGAGGAAGTCATCCTCCAGACCAA
GGAAGGAAAATGTGTTCTGTTTGCAGCCCAAGGTAATAATAGTCTTCCAGGGATTATCAAACATCTTGAGGGTCTGTCTG
AAGAAGTAATCATGGAGCTGAATCCACCCATTGGTATTCCCATCCTGCATGTATTGGACAAGAATCTGAAACTCATCAAG
CCCATGCAGTTCCTTGGAGATGAAGAGAATGTAGGCAAAGCCATGGAGGCTGTGGCAGCCCACAGCAAGGCCAAG

Alignment

ORF - retro_meug_251 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 61.48 %
• Parental protein coverage: 52.57 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  IPPPPM-DETHPYHAVISKERRYASLKPGELPTCESLKDTIARALPFWNEQIVPQIKSGKRVLIAAHGN-
          I.PPPM....HP....ISK....A.L.....P.CESLK.TI...LPFWNE....Q.K.GK.VL.AA.GN.
Retrocopy ILPPPM<EPNHPFYSNISKDHH*ADLTEDQPPLCESLKATIV--LPFWNEEVILQTKEGKCVLFAAQGNN

Parental  SLRGIVKHLEGMSDEAIMELNLPTGIPIVYELDDHLKPTKPMQFLGDEETVRKAMEAVAAQGKAK
          SL.GI.KHLEG.S.E.IMELN.P.GIPI...LD..LK..KPMQFLGDEE.V.KAMEAVAA..KAK
Retrocopy SLPGIIKHLEGLSEEVIMELNPPIGIPILHVLDKNLKLIKPMQFLGDEENVGKAMEAVAAHSKAK

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_251 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_251 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,