RetrogeneDB ID: retro_meug_1887

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold68945:6102..6732(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: PRTFDC1
• Ensembl ID: ENSMEUG00000000136
• Aliases: None
• Description: phosphoribosyl transferase domain containing 1 [Source:HGNC Symbol;Acc:23333]

Sequence

>retro_meug_1887
ATTGTGATTGAAGATAATGAACCGGGCTACAACCTGGACTTATTTTGCATCCCTAAACATTATGCTGAAGATCTGGAAAA
AGTATTCATTCCTCATGGGTTAATCCTGGACAGGACTGAACGTTTAGCACGAGATGTGATGAAGGAGATGGGAGGCCACC
ACATGGTTGCCCTATGTGTCCTCAAAGGTGGCTATAAATTCTTTGCTGATTTGCTGGATTATATCAAGGCACTGAACAGG
AATAGTGACCAATCAATTCCTATGACTGTAGATTTTGTCAGATTGAAGAGTTACTGTAATGACCAGTCAACAGGGGACAT
AAAAGTAATTGGAGGAGATGATCTCTCAGCCTTAACTGGAAAGAATGTCCTGATTGTTGAAGATATCGTTGACACAGGGA
AAACAATGCAGACTTTGCTTTCCCTGATCAAGCAACATAATCCAAAGATGGTGAAAGTAGCCAGCTTGCTGGTGAAAAGG
ACCTCAAGAAGTATGGGATACAGACCTGACTTTGTTGGATTTGAAATTCCAGACAAATTTGTTGTTGGATATGCCCTGGA
CTACAATGAATACTTTAGAGACTTAAACCATATCTGTGTCATAAGTGAAAATGGCAAAGAAAAGTACAGA

Alignment

ORF - retro_meug_1887 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 59.05 %
• Parental protein coverage: 93.75 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  VVISDGWPGYNLDLFTYPQHYYGDLNHVLIPHGVIMDRTEKLAKDIMNDIGYCDIMVLCMLKGGYKFCVD
          .VI.D..PGYNLDLF..P.HY..DL..V.IPHG.I.DRTE.LA.D.M...G......LC.LKGGYKF..D
Retrocopy IVIEDNEPGYNLDLFCIPKHYAEDLEKVFIPHGLILDRTERLARDVMKEMGGHHMVALCVLKGGYKFFAD

Parental  LVENLKNISRNSDTFVSMKVDFIRPKSYKNDQSLDDMQISGGDDFSELAGKNVLIVEDIVGSGRTMKSLL
          L....K...RNSD....M.VDF.R.KSY.NDQS..D....GGDD.S.L.GKNVLIVEDIV..G.TM..LL
Retrocopy LLDYIKALNRNSDQSIPMTVDFVRLKSYCNDQSTGDIKVIGGDDLSALTGKNVLIVEDIVDTGKTMQTLL

Parental  XXXXXXXXXXXXXXXLLVKRSPGSDGFQPDYIGFEIPDLFVVGYALHYNEYFQDLNHICVISEQGKVKYR
          ...............LLVKR...S.G..PD..GFEIPD.FVVGYAL.YNEYF.DLNHICVISE.GK.KYR
Retrocopy SLIKQHNPKMVKVASLLVKRTSRSMGYRPDFVGFEIPDKFVVGYALDYNEYFRDLNHICVISENGKEKYR

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_1887 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_1887 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 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000012241	1 retrocopy	retro_etel_84,
Macropus eugenii	ENSMEUG00000000136	3 retrocopies	retro_meug_1887 , retro_meug_2035, retro_meug_295,
Ochotona princeps	ENSOPRG00000016040	2 retrocopies	retro_opri_168, retro_opri_419,