RetrogeneDB ID: retro_meug_1044

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold26799:7194..7915(-)
• 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_1044
GAGAGCACCTGGAACCTGGAGAACTGCTTCAGCGGCTACTACAAAGTGGATATGTGCCCTGCCGGGCACAAGGAAGCAAG
GGCGGTGGCCAGGCTCTGAGAGATGCTGGCTATGAATTTGACATCTGCTTCACCTCCATCCAGAAGAGAGCAATTCATAC
CCTTTGGACAATACTAGATGCCATTGACCAGATGTGGTTGTCTGTAGTGAGGACTTGGCACCTCAGTAAGCGGCACTATG
GAGGTCTGACAGGCCTCAACAAAGCAGAGACCACTGCTAAGCATGGTGAGGCCCAGGTGAAGATCTAGCAATGACCTTGC
GACATCCCACCACCTGCAATGGAGCCTGACCACCCCTTCTACAGCAACATCAGCAAGGACCGTCGCTATGCAGATCTGAC
TAAGGATCAGCTGCCTTCCTGTGAGAGCCTGAAAGACACCATTGCCAGGCTGTACCTTTCTAGAATGAGGAAATCATCCC
CCAGATCAAGGAAGGCAAATGTGTTCTGATCGCAGCCCATGGCAATAGTCTTCGAGGGATTGTCAAACATCTTGAAAGTC
TGTCTGAAAAAGCGATCATGGAGCTGAATCTGCCCACTGGCATTCCCATCGTGTATGAGTTGGACAAGAATCTGAAGCCC
ATCAAGCCCATCCACTTCCTTGGGGATGAAGAGACTGTGCACAAAGCCATGGCAGCCGTGGCAGCCCAAAGCAAGGCCAA
G

Alignment

ORF - retro_meug_1044 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 69.55 %
• Parental protein coverage: 95.26 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  ESTWNQENRFCGWFDAELSEKGMEEA-KRGAQAVKEAGLQFDICYTSVLKRAIRTLWIIMDGIDQMWLPV
          ESTWN.EN.F.G.........G..EA.K.G.QA...AG..FDIC.TS..KRAI.TLW.I.D.IDQMWL.V
Retrocopy ESTWNLENCFSGYYKVDMCPAGHKEA<KGGGQALRDAGYEFDICFTSIQKRAIHTLWTILDAIDQMWLSV

Parental  IRTWRLNERHYGGLTGLNKAETAAKHGEAQVKIWRRSFDIPPPPMDETHPYHAVISKERRYASLKPGELP
          .RTW.L..RHYGGLTGLNKAET.AKHGEAQVKI.....DIPPP.M...HP....ISK.RRYA.L....LP
Retrocopy VRTWHLSKRHYGGLTGLNKAETTAKHGEAQVKI*Q*PCDIPPPAMEPDHPFYSNISKDRRYADLTKDQLP

Parental  TCESLKDTIAR-ALPFWNEQIVPQIKSGKRVLIAAHGNSLRGIVKHLEGMSDEAIMELNLPTGIPIVYEL
          .CESLKDTIAR.A.PF.NE.I.PQIK.GK.VLIAAHGNSLRGIVKHLE..S..AIMELNLPTGIPIVYEL
Retrocopy SCESLKDTIAR<AVPF*NEEIIPQIKEGKCVLIAAHGNSLRGIVKHLESLSEKAIMELNLPTGIPIVYEL

Parental  DDHLKPTKPMQFLGDEETVRKAMEAVAAQGKAK
          D..LKP.KP..FLGDEETV.KAM.AVAAQ.KAK
Retrocopy DKNLKPIKPIHFLGDEETVHKAMAAVAAQSKAK

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_1044 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_1044 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,