RetrogeneDB ID: retro_meug_1299

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold360863:781..1461(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMEUG00000003233
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSMEUG00000000831
• Aliases: None
• Description: None

Sequence

>retro_meug_1299
ATGGTAGCACCCAGTGATGGTGTCCAGGCATGTGAACGGTGCATTTGGAATTCGGAACAAGATGGGATGCGGTGGAGCTC
AAACGGTGGTGCCTGGGAGCAGGGAGCAAAAGTGGGGACTGGCAGCTCATGGTGGTGCTGGGAGAGGCCACCCTGGAGAC
CATCAAGGTAGGGAAAACCTATGAGCTGCTCAACTGTGACAAACATAAATCTATACTCTTGAAAAATGGATGGGATCCTG
GAGAAGTGAGACCTGACATAGCCCACCAGAGCTTGCTGATGCTGATGGACAGTCCCTTGAACTGTGCTGGCATGTTCCAG
GCTTATATCCATACCCAAAAGAATGTTCTGATTGAGGTGAACCCCCAGACTTGGATTCCTCGGACTTTTAACTGCTTCTG
TGGTCTCATGGTTCAGCTCCTGCACAAACTTAGCATTCAAGCAGCTGAAGGCCCCCAGAAGCTTTTGAAAGTGATCAAGA
ACCCCATGTTGGACCATTTTTCTGCAGGCTGTATGAAGACTGGCACCTCCTTTTCTAGTCCTGTGGTCAGTGATGTTAAA
GTGTTGGCTCCCAGCAGTGACCCTGTCATCTTTGTTGTTGTGGCCTTTGCCCATGGCTCGATCAATGTTGATTACACAGA
AAAGATGGTATCCATCAGCAACTATACCCTTTTTGCTGCC

Alignment

ORF - retro_meug_1299 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.02 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MAAPSDAFQARERRIRDSERD-WDAAEPKRPRLGAGSKSGG-RLVVVLEGASLETVKVGKTYELLNCDKH
          M.APSD..QA.ER.I..SE.D.WDA.E.KR..LGAGSKSG...L.VVL..A.LET.KVGKTYELLNCDKH
Retrocopy MVAPSDGVQACERCIWNSEQD<WDAVELKRWCLGAGSKSGDWQLMVVLGEATLETIKVGKTYELLNCDKH

Parental  KSILLKNGRDPGEVRPDIAHQSLLMLMDSPLNRAGMLQVYIHTQKNVLIEVNPQTRIPRTFDRFCGLMVQ
          KSILLKNG.DPGEVRPDIAHQSLLMLMDSPLN.AGM.Q.YIHTQKNVLIEVNPQT.IPRTF..FCGLMVQ
Retrocopy KSILLKNGWDPGEVRPDIAHQSLLMLMDSPLNCAGMFQAYIHTQKNVLIEVNPQTWIPRTFNCFCGLMVQ

Parental  LLHKLSVRAADGPQKLLKVIKNPVSDHFPAGCMKIGTSFSVPVVSDVKELAPSSDPVVFVVGAFAHGSIN
          LLHKLS..AA.GPQKLLKVIKNP..DHF.AGCMK.GTSFS.PVVSDVK.LAPSSDPV.FVV.AFAHGSIN
Retrocopy LLHKLSIQAAEGPQKLLKVIKNPMLDHFSAGCMKTGTSFSSPVVSDVKVLAPSSDPVIFVVVAFAHGSIN

Parental  VDYTEKMVSISNYPLSAA
          VDYTEKMVSISNY.L.AA
Retrocopy VDYTEKMVSISNYTLFAA

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_1299 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_1299 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 10 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000013753	1 retrocopy	retro_amel_1924,
Callithrix jacchus	ENSCJAG00000007120	1 retrocopy	retro_cjac_2960,
Gorilla gorilla	ENSGGOG00000004287	1 retrocopy	retro_ggor_3077,
Macropus eugenii	ENSMEUG00000000831	1 retrocopy	retro_meug_1299 ,
Myotis lucifugus	ENSMLUG00000009196	1 retrocopy	retro_mluc_737,
Macaca mulatta	ENSMMUG00000010207	1 retrocopy	retro_mmul_671,
Nomascus leucogenys	ENSNLEG00000005080	1 retrocopy	retro_nleu_501,
Otolemur garnettii	ENSOGAG00000006975	2 retrocopies	retro_ogar_2971, retro_ogar_945,
Pongo abelii	ENSPPYG00000004215	1 retrocopy	retro_pabe_2924,
Rattus norvegicus	ENSRNOG00000012828	1 retrocopy	retro_rnor_1459,