RetrogeneDB ID: retro_meug_1636

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold49796:5160..5905(-)
• 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_1636
ATGACTTCCTACAAGCTGGTGCTGATCTGGCATTGAGAGAGCATCTGGAACCTGAAGAATCACTTCAGCAGTGGTACAAA
GCAGACTGAGCCTCGCTGGGCATGAGAACGCCAAGCGTGGTGGCCAGGAGCTGCGAAATGCTGGTTATGAATTTGATATC
TGCTTCACTTCCATCCATAAGAGAGCAATTTGTACCCTTTGGACAGTACTAGAAGCCATTGACCAGATATGGTTGCCAGT
AGTGAGGACTTGGTGCCTCAGTGAGTGGCACTATGGAGATCTGACAGATCTCAACAAGGCAGAGATCATTGCTAAGCATG
GTGAGATCTGGCGATGATCCTACAACATCCCACCACCTCCAATGGAGCCTGACCACCCCTTCTACAGCAACATCAGCAAG
GACTGTCACTACGCAGATCTGATTGAGGATCAGCTGCTTTCATGTCAGAGCCTGAAAGACACCACTGCCTGGGCTCTGTC
TTTCTGGAATGAGGAAATTGTCCACCAGATCAAGGAAGGCAAATGTGTTCTGATTGCAGCCCATGGCAATAGTCTTCAAA
GGACTGTCAAACATCTTGAAAGTCTGTCTGCAGAAGCAATCTTGGAACTGAATTTGCGCACTGCCGGTCCCATTGTGTAT
GAGTTGGACAAGAATCTGAAGCCCATCAAGCCCATGCAGTTCCTTGGGGATGAAGAGATTGTGTCCAAAGTCATGGCAGC
CGTGGCAGCCCAAGACAAGACCAAG

Alignment

ORF - retro_meug_1636 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 61.18 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MPTHRLVIVRHGESTWNQENRFCG-WFDAE-LSEKGMEEAKRGAQAVKEAGLQFDICYTSVLKRAIRTLW
          M....LV...H.ES.WN..N.F...W..A..LS..G.E.AKRG.Q....AG..FDIC.TS..KRAI.TLW
Retrocopy MTSYKLVLIWH*ESIWNLKNHFSS<WYKAD<LSLAGHENAKRGGQELRNAGYEFDICFTSIHKRAICTLW

Parental  IIMDGIDQMWLPVIRTWRLNERHYGGLTGLNKAETAAKHGEAQVKIWRRSFDIPPPPMDETHPYHAVISK
          .....IDQ.WLPV.RTW.L.E.HYG.LT.LNKAE..AKHGE....IWR.S..IPPPPM...HP....ISK
Retrocopy TVLEAIDQIWLPVVRTWCLSEWHYGDLTDLNKAEIIAKHGE----IWR*SYNIPPPPMEPDHPFYSNISK

Parental  ERRYASLKPGELPTCESLKDTIARALPFWNEQIVPQIKSGKRVLIAAHGNSLRGIVKHLEGMSDEAIMEL
          ...YA.L....L..C.SLKDT.A.AL.FWNE.IV.QIK.GK.VLIAAHGNSL...VKHLE..S.EAI.EL
Retrocopy DCHYADLIEDQLLSCQSLKDTTAWALSFWNEEIVHQIKEGKCVLIAAHGNSLQRTVKHLESLSAEAILEL

Parental  NLPTGIPIVYELDDHLKPTKPMQFLGDEETVRKAMEAVAAQGKAK
          NL.T..PIVYELD..LKP.KPMQFLGDEE.V.K.M.AVAAQ.K.K
Retrocopy NLRTAGPIVYELDKNLKPIKPMQFLGDEEIVSKVMAAVAAQDKTK

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_1636 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_1636 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,