RetrogeneDB ID: retro_meug_444

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold11516:15134..15933(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MAPKAP1
• Ensembl ID: ENSMEUG00000005228
• Aliases: None
• Description: mitogen-activated protein kinase associated protein 1 [Source:HGNC Symbol;Acc:18752]

Sequence

>retro_meug_444
ATGGCCTTCTTAGATAACCCAACAGTCATCCTGGCTCATATCCAGCAATCTCATGTGACCGGGGATGACATGGGGATGTG
TGAGATCATCCTAACTGATCGTGATGTAGATCTGGAAAAGTTTCATCCACCTTTGGTGCCTGGAGATGGTGGCTCAGAAA
TTCCAGGAAGCAGTGTTGAAACTCAGGGCTGGGTCTATGCTCAACATGTTGAGAATACCTCAGTTGGGACTTTTGCATCA
GAAGACACTCAAACATAGCTCGAGATTAGAGAGACTTCAAAAAAGAGAGACAAAACCAGATAAAATGCAAGAATGTCCCA
TAAAAAGAAGAAATGCTTCTCGTTCAACAAAGGAGCTCAGTTCATTTTTTGAAAAAAAGAACTTCAAAGTCAAGTCTTCA
AGTGTAGGGAAGCCATCGCTCCTCTCTGTGCACCTAGAGCAGTGCCCTCTCCGACTAAATGATTCTTTTAATGAGTATTC
CAAATTTGATGATAAGGGCCACAGTAGAGACCACTGCAACCAAAAAAATTGACGGCTACCTTGCACTGCACACAAGCCAA
GACAGACTGTTACTAATGACAGTTGTGACCATAGCACATGCCAAGGTGTATGACCTAATCAGACTAATCTGCTGGCAGTA
TACAAGTGAAAGACGAGAACCCAAGCTCAATGACAACGTTAGTGCTTATTGTCTCCATAGGCTGAGGACAACGGTGAGGT
TGACATAGACTTCCCTCTCCTGGATTCCAATGAACCCATTCGCAAATTTGGCTTCAGCACTTTGGCCTTGGTTGAGAAG

Alignment

ORF - retro_meug_444 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 80.95 %
• Parental protein coverage: 51.45 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 6

Retrocopy - Parental Gene Alignment:

Parental  MAFLDNPTIILAHIRQSHVTSDDTGMCEMVLIDHDVDLEKFHPPLVPGDSGLEMPGSSVETQGYVYAQSV
          MAFLDNPT.ILAHI.QSHVT.DD.GMCE..L.D.DVDLEKFHPPLVPGD.G.E.PGSSVETQG.VYAQ.V
Retrocopy MAFLDNPTVILAHIQQSHVTGDDMGMCEIILTDRDVDLEKFHPPLVPGDGGSEIPGSSVETQGWVYAQHV

Parental  DITS-SWDFGIRRRSNTAQ-RLERL-RKERQNQIKCKNVPWKE-RNASHSAEELSSLFEKKNFKVKSSSV
          ..TS.SWDF.IRR.SN.A..RLERL..KERQNQIKCKNVP.KE.RNAS.S..ELSS.FEKKNFKVKSSSV
Retrocopy ENTS<SWDFCIRRHSNIAR<RLERL>KKERQNQIKCKNVP*KE<RNASRSTKELSSFFEKKNFKVKSSSV

Parental  GKPSLLSVRLEQCPLQLNNPFNEYSKFDGKG-PVGTTATKKIDVYLPLHTSQDRLLPMTVVTIAHAKVHD
          GKPSLLSV.LEQCPL.LN..FNEYSKFD.KG..V.TTATKKID.YL.LHTSQDRLL.MTVVTIAHAKV.D
Retrocopy GKPSLLSVHLEQCPLRLNDSFNEYSKFDDKG>TVETTATKKIDGYLALHTSQDRLLLMTVVTIAHAKVYD

Parental  LIGLICWQYTSEGREPKLNDNVSAYCLHI-AEDNDEVDTDFLPLDSNEPIHKFGFSSLTLVEK
          LI.LICWQYTSE.REPKLNDNVSAYCLH..AEDN.EVD.DF..LDSNEPI.KFGFS.L.LVEK
Retrocopy LIRLICWQYTSERREPKLNDNVSAYCLHR<AEDNGEVDIDFPLLDSNEPIRKFGFSTLALVEK

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_444 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_444 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 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000009733	1 retrocopy	retro_dnov_121,
Macropus eugenii	ENSMEUG00000005228	1 retrocopy	retro_meug_444 ,