RetrogeneDB ID: retro_meug_2134

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold93158:4574..4834(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: LYRM2
• Ensembl ID: ENSMEUG00000009916
• Aliases: None
• Description: LYR motif containing 2 [Source:HGNC Symbol;Acc:25229]

Sequence

>retro_meug_2134
ATGTCCTCTTCTCACCTGCCCCCTGTAGCACTAACCCTCAAACAGTTCATGAGAAGGCAATAAGTCCTCCTTCTATAAAG
ATTTTACAAGCAATTCACCAGGTACCAAATGGACGAGACCACAAGTATCTACAGAACTAGGCAAGGGAAGAATTCAAAAG
AAATAAAAGTGTCACAGAAGAGGATACAATCCAAATGATGATTACTCAAGGAAATCTGCCATTGAAAGAATTGGAGAAAA
CATTAAACTTAGCAAAAGCT

Alignment

ORF - retro_meug_2134 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 83.15 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MSSSRLPPVALTLKQFMRRQQVLLLY-RKILQAIRQVPNERDRKYLQNWAREEFKRNKSATEEDTIRMMI
          MSSS.LPPVALTLKQFM.R.Q..LL...KILQAI.QVPN.RD.KYLQN.AREEFKRNKS.TEEDTI.MMI
Retrocopy MSSSHLPPVALTLKQFM-RRQ*VLLL<IKILQAIHQVPNGRDHKYLQN*AREEFKRNKSVTEEDTIQMMI

Parental  TQGNLQLKELEKTLNLAKA
          TQGNL.LKELEKTLNLAKA
Retrocopy TQGNLPLKELEKTLNLAKA

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_2134 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_2134 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 10 parental genes, and 15 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000000905	1 retrocopy	retro_cjac_2485,
Cavia porcellus	ENSCPOG00000015625	4 retrocopies	retro_cpor_1169, retro_cpor_1223, retro_cpor_925, retro_cpor_946,
Homo sapiens	ENSG00000083099	1 retrocopy	retro_hsap_2054,
Macropus eugenii	ENSMEUG00000009916	1 retrocopy	retro_meug_2134 ,
Microcebus murinus	ENSMICG00000012230	2 retrocopies	retro_mmur_631, retro_mmur_650,
Mus musculus	ENSMUSG00000045854	2 retrocopies	retro_mmus_474, retro_mmus_790,
Otolemur garnettii	ENSOGAG00000034900	1 retrocopy	retro_ogar_508,
Sus scrofa	ENSSSCG00000004324	1 retrocopy	retro_sscr_686,
Ictidomys tridecemlineatus	ENSSTOG00000016198	1 retrocopy	retro_itri_1279,
Tursiops truncatus	ENSTTRG00000007420	1 retrocopy	retro_ttru_1516,