RetrogeneDB ID: retro_meug_1954

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold74233:2821..3218(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: PACRGL
• Ensembl ID: ENSMEUG00000009937
• Aliases: None
• Description: PARK2 co-regulated-like [Source:HGNC Symbol;Acc:28442]

Sequence

>retro_meug_1954
TTTAGTGATCAGTCACAGGCTCTTTCTGCTTTTACTGCTATTTACTCCAAAGGAGGTCTTCTTTATAGGTTGGTTCATGG
TTCAGTAAAACACAAGTTATGGTGGGACTGTTCTGAAACTCTTCCATTTGATCTTCTTCTTACTACTTTAGCAGAGGGTC
TAAGAGAGACTAAACACCCATATACATTTGTATCAAAAGAAGGTTTTGAAGAATTACTTTTGATTGAAGGAGCTACTGAA
AAAACTGTTCCCTTGCCACCTAGACCGATTCCTGTCTTGAAGGCACCTCTGAGTCATGCTGGTGGTGAAGTGTTTGAAAG
GAGATGGAATACTTTAGTATAAATTGAGTGGTGTTGAGCCTTCTCTGAATGATCATCTGAAGCATTTGCTTACAAAT

Alignment

ORF - retro_meug_1954 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 77.04 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  FSDQPRASSAFAAIYSKGGIPCRLVHGSVKHKLQWDCLPETLPFDPLLITLAEGLRETKHPYTFVSKEGF
          FSDQ..A.SAF.AIYSKGG...RLVHGSVKHKL.WDC..ETLPFD.LL.TLAEGLRETKHPYTFVSKEGF
Retrocopy FSDQSQALSAFTAIYSKGGLLYRLVHGSVKHKLWWDC-SETLPFDLLLTTLAEGLRETKHPYTFVSKEGF

Parental  KELLLVEGATQKTVPLLPRLIPVLKAALTHSDGEVFGRGLNAVV-QLSGVVGPSLNDHLKHLLTS
          .ELLL.EGAT.KTVPL.PR.IPVLKA.L.H..GEVF.R..N..V..LSG.V.PSLNDHLKHLLT.
Retrocopy EELLLIEGATEKTVPLPPRPIPVLKAPLSHAGGEVFERRWNTLV>KLSG-VEPSLNDHLKHLLTN

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_1954 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_1954 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 9 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Dipodomys ordii	ENSDORG00000015625	1 retrocopy	retro_dord_96,
Homo sapiens	ENSG00000163138	1 retrocopy	retro_hsap_488,
Gorilla gorilla	ENSGGOG00000012603	1 retrocopy	retro_ggor_458,
Macropus eugenii	ENSMEUG00000009937	2 retrocopies	retro_meug_1836, retro_meug_1954 ,
Monodelphis domestica	ENSMODG00000000641	2 retrocopies	retro_mdom_1541, retro_mdom_1646,
Oryctolagus cuniculus	ENSOCUG00000002186	1 retrocopy	retro_ocun_258,
Pan troglodytes	ENSPTRG00000015945	1 retrocopy	retro_ptro_368,
Rattus norvegicus	ENSRNOG00000004140	1 retrocopy	retro_rnor_1543,
Tarsius syrichta	ENSTSYG00000001584	1 retrocopy	retro_tsyr_1866,