RetrogeneDB ID: retro_meug_1679

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold52570:6821..7432(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: WDYHV1
• Ensembl ID: ENSMEUG00000008130
• Aliases: None
• Description: WDYHV motif containing 1 [Source:HGNC Symbol;Acc:25490]

Sequence

>retro_meug_1679
ATGGATGGAGAGGGATCCGTTTCCCAAGGCTAGCAGCCAGCAGCCCACCGCAGGACGCCTGCACCTACAGCAGCTGCTGT
GAAGAAAATATCTGGAAGCTTTGTGAATACATAAAAAGCCATGATCAATATCCTTTAGAAGAATGTTATGCTGTCTTCAT
ATCTAATGAGAGAAGAATGATCTCAGTTTCAAAGCAGCAGGTCAGACCTGGAGGTGGACCTATCATTTGGGATTACTATG
TTCTTTTGCTTCATATTTCAAGTGGAGGACAGGGTTTCATTTATGATCTTGACACTGTATTGCCATTTCCATGTCCCTTT
GACACTTATGTAGAAGATGATGCTAACTCTGATGATAATATCCATCCACAATTTAGAAGAAAATTTAGAGTGATTAGAGC
AGACTTGTATTTGAAGAACTCTGCATCTGACTGATCTCACATGAAAGATTCCAGTGGAAATTGGAAAGAGCCTCCTGCTC
CCCCCTACCCCTGCATTGAAACTGGAGCTTCAAAAATAAACCTGAATGATTTTATCAGTATGAATCCTGAGGTTGGATGG
GGAGCTTTATACACACTACCTGACTTTGTACATCAATTTGGCAGTAAGAAC

Alignment

ORF - retro_meug_1679 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.92 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MEGEGSVSRGYQPA-SPPRDACTYSSCYCEENIWKLCEYIKNHDQYPLEECYAVFISNERRMIPIWKQQA
          M.GEGSVS.G.QPA.SPP.DACTYSSC.CEENIWKLCEYIK.HDQYPLEECYAVFISNERRMI...KQQ.
Retrocopy MDGEGSVSQG*QPA<SPPQDACTYSSC-CEENIWKLCEYIKSHDQYPLEECYAVFISNERRMISVSKQQV

Parental  RPGDGPIIWDYHVVLLHVSSGGQSFIYDLDTVLPFPCPFDTYVEDAFKSDDDIHPQFRRKFRVIRADLYL
          RPG.GPIIWDY.V.LLH.SSGGQ.FIYDLDTVLPFPCPFDTYVED...SDD.IHPQFRRKFRVIRADLYL
Retrocopy RPGGGPIIWDYYVLLLHISSGGQGFIYDLDTVLPFPCPFDTYVEDDANSDDNIHPQFRRKFRVIRADLYL

Parental  KNFASDRSHMKDSSGNWKEPP-PPYPCIETGXXXMNLNDFISMNPEVGWGAIYTLPDFVHRFGSKN
          KN.ASD.SHMKDSSGNWKEPP.PPYPCIETG....NLNDFISMNPEVGWGA.YTLPDFVH.FGSKN
Retrocopy KNSASD*SHMKDSSGNWKEPPAPPYPCIETGASKINLNDFISMNPEVGWGALYTLPDFVHQFGSKN

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_1679 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_1679 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 3 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000000865	1 retrocopy	retro_cjac_4210,
Macropus eugenii	ENSMEUG00000008130	3 retrocopies	retro_meug_1679 , retro_meug_491, retro_meug_565,
Oryctolagus cuniculus	ENSOCUG00000014201	1 retrocopy	retro_ocun_266,