RetrogeneDB ID: retro_meug_578

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold13958:25178..26122(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ENO3
• Ensembl ID: ENSMEUG00000007915
• Aliases: None
• Description: enolase 3 (beta, muscle) [Source:HGNC Symbol;Acc:3354]

Sequence

>retro_meug_578
AAGGCCAGAGCTGCTGAGAAAGGGTATCTCCCTGTACTGTCATATTGCTGACTTACAAGCCACAATAAAGTCATCCTGCC
AGTTCCAGCCTTCAACGTGATCAGTTGTGGCTCCCATGATGGTAACAAGTTGGCCATGCAGGAGTTCATGATCCTCCCTG
TCGGAGCAGCAAACTTTAAGGAGGTCATGCGCATTGGATCTGAGGTTTACCACAACCTGAACAGTGTGATTAAGCAGAAA
TATGGACAGCACGCCACCAACATAGAGGATTAAGGTGGCTTTACTCCTAACATCCTGGAGAATAAAGAAGCTCTGGACAT
GTTGAAGAATGCTATTGGTAAAGCAGGCTACACTCATGAGATGGTAATTGGCGTGCATGTTACTGCCTCTGAATTCTCCG
ATCAGGGAAATATGATTTGGACTTCAAGTCTTCTGATTGTTCCGGCAGAAGCATCTCCCCTTCTGAGCTTGGGGACCCCT
AAAAGAGCTTCCGCAAGGACTATCTGGTGGGGTCTATTGAACATCCCTCTGACCAGGATGCTTGAGAAGCTTGGAAAAAT
TTCACTTATACAGCCGGGATCCAAGTGGTAGAAAATGATCTCACAGTGACCAATCTCAAGTGAATTGAAAAGGCTGTTAA
TAAGAAGGTCTGCAATTGCCTCCTACTCAAAGTGAACCACATTGGCTCTGTGACTGAATCTCTCCAGGCATGCAAGCTGG
CCCAATCCAATTGGTCAGGATTAATGATTTCACATCCTTCTGGGGAGACTGAAGATACCTTCATTGCAGACCTGGTGGTG
GGTATTTGTACTGGGCAGATCAAGACTGATGCCCCCTGCCGATATAAGCATCTGGCCAAGTATAACCAACTTCTCAGAAC
TGAGGAAGAGCTGGGAAGCAAGGCTAAATTTGCTGGAAGGAACTTCAGAAATCCTCGGGCCAAA

Alignment

ORF - retro_meug_578 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 66.98 %
• Parental protein coverage: 72.58 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  KAGAAEKG-VPLYRHIADL-AGNPDLVLPVPAFNVINGGSHAGNKLAMQEFMILPVGAASFREAMRIGAE
          KA.AAEKG...LY.HIADL........LPVPAFNVI..GSH.GNKLAMQEFMILPVGAA.F.E.MRIG.E
Retrocopy KARAAEKG>ISLYCHIADL<TSHNKVILPVPAFNVISCGSHDGNKLAMQEFMILPVGAANFKEVMRIGSE

Parental  VYHHLKGVIKSKYGKDATNVGDEGGFAPNILENNEALELLKTAIQAAGYPDKVVIGMDVAASEF-YKNGK
          VYH.L..VIK.KYG..ATN..D.GGF.PNILEN.EAL..LK.AI..AGY....VIG..V.ASEF....GK
Retrocopy VYHNLNSVIKQKYGQHATNIED*GGFTPNILENKEALDMLKNAIGKAGYTHEMVIGVHVTASEF<LRSGK

Parental  YDLDFKSPDDPARHISGEKLGELYKSFIKNYPVVSIEDPFDQDDWATWTKFLSGVDIQIVGDDLTVTNPK
          YDLDFKS.D...R.IS...LG...KSF.K.Y.V.SIE.P.DQD....W..F.....IQ.V..DLTVTN.K
Retrocopy YDLDFKSSDCSGRSISPSELGDP*KSFRKDYLVGSIEHPSDQDA*EAWKNFTYTAGIQVVENDLTVTNLK

Parental  RIAQAVEKRACNCLLLKVNQIGSVTESIQACKLAQTNGWGVMVSHRSGETEDTFIADLVVGLCTGQIKTG
          .I..AV.K..CNCLLLKVN.IGSVTES.QACKLAQ.N..G.M.SH.SGETEDTFIADLVVG.CTGQIKT.
Retrocopy *IEKAVNKKVCNCLLLKVNHIGSVTESLQACKLAQSNWSGLMISHPSGETEDTFIADLVVGICTGQIKTD

Parental  APCRSERLAKYNQLMRIEEALGDKAVFAGRKFRNPKAK
          APCR...LAKYNQL.R.EE.LG.KA.FAGR.FRNP.AK
Retrocopy APCRYKHLAKYNQLLRTEEELGSKAKFAGRNFRNPRAK

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_578 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_578 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 9 parental genes, and 56 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000015802	2 retrocopies	retro_cfam_1010, retro_cfam_2134,
Callithrix jacchus	ENSCJAG00000011679	2 retrocopies	retro_cjac_115, retro_cjac_177,
Dasypus novemcinctus	ENSDNOG00000011654	2 retrocopies	retro_dnov_1712, retro_dnov_75,
Macropus eugenii	ENSMEUG00000005942	11 retrocopies	retro_meug_1445, retro_meug_1521, retro_meug_353, retro_meug_472, retro_meug_494, retro_meug_652, retro_meug_664, retro_meug_765, retro_meug_794, retro_meug_874, retro_meug_888,
Macropus eugenii	ENSMEUG00000007840	1 retrocopy	retro_meug_96,
Macropus eugenii	ENSMEUG00000007915	25 retrocopies	retro_meug_1019, retro_meug_1341, retro_meug_1483, retro_meug_1540, retro_meug_1566, retro_meug_1605, retro_meug_170, retro_meug_1701, retro_meug_1743, retro_meug_1869, retro_meug_1905, retro_meug_1929, retro_meug_2026, retro_meug_2190, retro_meug_235, retro_meug_269, retro_meug_578 , retro_meug_607, retro_meug_637, retro_meug_803, retro_meug_820, retro_meug_906, retro_meug_965, retro_meug_973, retro_meug_976,
Rattus norvegicus	ENSRNOG00000004078	1 retrocopy	retro_rnor_2228,
Tupaia belangeri	ENSTBEG00000002346	5 retrocopies	retro_tbel_1514, retro_tbel_3080, retro_tbel_3130, retro_tbel_4230, retro_tbel_4383,
Tarsius syrichta	ENSTSYG00000007066	7 retrocopies	retro_tsyr_1019, retro_tsyr_1157, retro_tsyr_1626, retro_tsyr_1917, retro_tsyr_2043, retro_tsyr_52, retro_tsyr_534,