RetrogeneDB ID: retro_meug_1540

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold44373:7475..8146(-)
• 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_1540
ACTGAGAAAGGTCAATTCTGAGTTTCTGTGCCCAGTGGCTCTTCTACTGGTATCCATGAAGCCCTGGAGCTCCAAGACAA
TGATAAGCCCCACTACATGGTGAAAGGTGTCTCAGAAGCAGTTGAGCACACCAATAAAACTATTGCTCTGACCCTGATTA
GCAAGAAATTGAATGTTGTAGAGCAGGAGATGGACAAACTGATGATAGAGATGAACGACACAGAGCATCAACCTAAATTT
GATGCAAATGCCATATTGGGAGTTTCTCTGGCTATTTGTAAGGCCAGAGCTGCTGAGAAAGGTGTCTCCCTATAAGCCAT
ATATCTTGCAGGCAATGGTGAAGTTATCCTGACAGTTCCAGCCTTCAGTGTGATCAATGGTGAATCCCATGCTGGTAACC
ATTTGACCATGCAGCAGTTCATGATTCTCCCTGTTGAAGCAACAAACTTTAAGGAGGCCATGCACATTGGTGCTGAGGTC
TATCACAACCTGAAGGGTGTGATTATGCAGAAGTATGGACAGGACACCACCAACGTAGGAGATGAGGGCTGCTTTGCTCC
TAACATCTTGGAGAATAAAGAAGCTCTGGACGTGCTAAAGAATGCTATTGGTAAGGCTGGCTATACTCATAAGTCATAAG
TGGCATGGATGTTGCTGCCTCTGAATTCTTC

Alignment

ORF - retro_meug_1540 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 60.96 %
• Parental protein coverage: 52.3 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  TAKGRFRAAVPSGASTGIYEALELRDGDKSRYLGKGVLXXXXXXXXXXXXXXXXXKLSVVDQEKVDKFMI
          T.KG.F...VPSG.STGI.EALEL.D.DK..Y..KGV..................KL.VV.QE..DK.MI
Retrocopy TEKGQF*VSVPSGSSTGIHEALELQDNDKPHYMVKGVSEAVEHTNKTIALTLISKKLNVVEQE-MDKLMI

Parental  ELDGTENKSKFGANAILGVSLAVCKAGAAEKGVPLYRHIADLAGNPDLVLPVPAFNVINGGSHAGNKLAM
          E...TE...KF.ANAILGVSLA.CKA.AAEKGV.L........G...L..P..AF.VING.SHAGN.L.M
Retrocopy EMNDTEHQPKFDANAILGVSLAICKARAAEKGVSL*AIYLAGNGEVILTVP--AFSVINGESHAGNHLTM

Parental  QEFMILPVGAASFREAMRIGAEVYHHLKGVIKSKYGKDATNVGDEGGFAPNILENNEALELLKTAIQAAG
          Q.FMILPV.A..F.EAM.IGAEVYH.LKGVI..KYG.D.TNVGDEG.FAPNILEN.EAL..LK.AI..AG
Retrocopy QQFMILPVEATNFKEAMHIGAEVYHNLKGVIMQKYGQDTTNVGDEGCFAPNILENKEALDVLKNAIGKAG

Parental  YPDK-VVIGMDVAASEFY
          Y..K.V..GMDVAASEF.
Retrocopy YTHK<VISGMDVAASEFF

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_1540 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_1540 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,