RetrogeneDB ID: retro_meug_1464

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold414994:1242..1635(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TP53
• Ensembl ID: ENSMEUG00000013135
• Aliases: None
• Description: tumor protein p53 [Source:HGNC Symbol;Acc:11998]

Sequence

>retro_meug_1464
CCAACATCATCTACTGTTCCATCTCGAAAGGACTATCCTGGGGATTATGGCTTTAGGTTTGGTTTTCTATAATCTGGAAT
ACACAAGTCTGTCACCTGCACATACTCCCCTGAGCTGAACAAGCTATTTTGCCAACTGGCCAAGGCCTGCCCTGTCCAGC
TCTGGGTCACCTCATCACCACCTGCTGGTGTCTGAGTTCACGCTTTGGCAATTTATAAGAAGTCAGAACACACGACCAGG
GTGGTTAAGTGCTATCCCCACCATGAACAATGCACTGACCACATAGATGCCCTGGCATCCCCACAGTACCTGATCTGGGT
GGAAGGAAGTCTACAGGCTGAATACCTCAATGATGCCACCACCATGCGACAGAGTGCATCTATTCCATAAGAG

Alignment

ORF - retro_meug_1464 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.44 %
• Parental protein coverage: 57.71 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  PTSSTVPSRKDYPGDYGFRLGFLQSGTAKSVTCTYSPELNKLFCQLAKTCPVQLWVTSPPPAGARVRAMA
          PTSSTVPSRKDYPGDYGFR.GFL.SG..KSVTCTYSPELNKLFCQLAK.CPVQLWVTS.PPAG..V.A.A
Retrocopy PTSSTVPSRKDYPGDYGFRFGFL*SGIHKSVTCTYSPELNKLFCQLAKACPVQLWVTSSPPAGV*VHALA

Parental  IYKKSEHMTEVVKRCPHHERCTEHIDALAPPQHLIRVEGNLRAEYLNDATTMRQSVSIPYE
          IYKKSEH.T.VVK..PHHE.CT.HIDALA.PQ.LI.VEG.L.AEYLNDATTMRQS.SIP.E
Retrocopy IYKKSEHTTRVVKCYPHHEQCTDHIDALASPQYLIWVEGSLQAEYLNDATTMRQSASIP*E

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_1464 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_1464 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 5 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Macropus eugenii	ENSMEUG00000013135	2 retrocopies	retro_meug_1464 , retro_meug_599,
Myotis lucifugus	ENSMLUG00000006411	3 retrocopies	retro_mluc_2049, retro_mluc_2050, retro_mluc_452,
Monodelphis domestica	ENSMODG00000007271	1 retrocopy	retro_mdom_372,
Rattus norvegicus	ENSRNOG00000010756	1 retrocopy	retro_rnor_1411,
Sarcophilus harrisii	ENSSHAG00000015510	1 retrocopy	retro_shar_250,