RetrogeneDB ID: retro_meug_829

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold20083:8618..9065(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: LYSMD1
• Ensembl ID: ENSMEUG00000001228
• Aliases: None
• Description: LysM, putative peptidoglycan-binding, domain containing 1 [Source:HGNC Symbol;Acc:32070]

Sequence

>retro_meug_829
CCTGAGGACATCCTGGCTGGCCTGGCTCTCAAGTACAGGTTAACTATGGAACGCATTAAATGTGCTAACCGCCTTTATGC
TAATGACTCCATCTTCCTCAAGAAAACTGTCTACATTCCTATCCTGACTGAATCCCAGGGATAATTCAGTGGACTAGATT
CTGAGAAGGAAAAGGACAAGGAGGAAGAGATGCCATTGAATCAAGGCAGAGCTGAAACCTCCTCAGCTTTGAGGAAAAAA
CAAGAGGAAAAAGCCAATGGTGAAGGTGCTTCCTCCAGATGTGGCTAGGACCTCCCCATACCCAGCTATGACCTCTCTAC
CACCGACTTCCTCATGAAGATCAACTCACAGATCAGTTTGTTGAAGAAGGCTGCCATCAGGAAGGTGAAGAAAAGCGAGA
GTGGGGTACCTGAGGAGGATGTGCATCCCTGCTTGGCTTCCCCCAAA

Alignment

ORF - retro_meug_829 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 77.18 %
• Parental protein coverage: 66.22 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  PGDTLAGLALKYGVTMEQIKRVNRLYTNDSIFLKKTLYIPILMEPRGLFNGLDSEEEEDKEKEMPLSQGG
          P.D.LAGLALKY..TME.IK..NRLY.NDSIFLKKT.YIPIL.E..G.F.GLDSE.E.DKE.EMPL.QG.
Retrocopy PEDILAGLALKYRLTMERIKCANRLYANDSIFLKKTVYIPILTESQG*FSGLDSEKEKDKEEEMPLNQGR

Parental  AEAPSALRKKQEEKANGEGLSSRCGQDLPRPSHDLSATDFLKKIDSQISLSKKAAVRKLKKSESGVPGED
          AE..SALRKKQEEKANGEG.SSRCG.DLP.PS.DLS.TDFL.KI.SQISL.KKAA.RK.KKSESGVP.ED
Retrocopy AETSSALRKKQEEKANGEGASSRCG*DLPIPSYDLSTTDFLMKINSQISLLKKAAIRKVKKSESGVPEED

Parental  VHPHLASPR
          VHP.LASP.
Retrocopy VHPCLASPK

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_829 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_829 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
Macropus eugenii	ENSMEUG00000001228	1 retrocopy	retro_meug_829 ,
Mus musculus	ENSMUSG00000053769	1 retrocopy	retro_mmus_216,