RetrogeneDB ID: retro_meug_1569

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold463057:0..710(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSMEUG00000002979
• Aliases: None
• Description: None

Sequence

>retro_meug_1569
ATGCCATTCTCCAGTAGCCACAACATGCTGAGGTCCTGCTACCCCGCGGAGCAGGAATATCCCGACCTCTCCTCGGACAA
CAACCACATGGCTAAGGTGCTGACGCCTGAGCTCCATGAAAAACTCCGGGATAAGGCTACATTAAGCGGCTTCACCCTGG
ATGATGTCATCCAAACCGGTGTGGACAACCCAGGGCACCCATTCATCATGACTGTAGGCTGTGTGGCTGGAGATGAAGAG
CGCTACGAAGTGCTGAAGGAACTGTTTGATCCCATAATTGAGGACCGACATGGAAGCTATAAGCCTTCTGATGAGCATAA
GACTGATCTTAACCCTGACAATCTGCAGGATGGTGATGACCTGGATCCAAACTATGTTCTCAGTTCCCGTGTTTGAACAT
TGGGAGCATCCGAGGAATCTGCCTGCCTCCACATTGTAGCCGGGGCGAGCCTGGTGCCATAGAGAAGCTGTCTGTGGAAG
CTCTGGCCAGCCTGGAAGGTGACCTGAATGGGAAGTACTATGCTTTGAAGAACATGACTGAGCAGGAACAGCAGCAGCTG
ATTGATGACCACTTCCTCTTCGACAAGCCTGTCTCCCCACTCCTCTTGGCTTCTGGCATGGCCCGAGACTGGCCCGATGG
GAGGGGCATTTGGCACAATGACAACAAGACCTTTCTGGTGTAGATCAATGAGGAAGATCACCTGAGGGTC

Alignment

ORF - retro_meug_1569 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 91.18 %
• Parental protein coverage: 62.7 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MPFSNSHNMLKSRYPAEEEYPDLSSHNNHMAKVLTPELYEKLRDKATSSGFCLDDVIQTGVDNPGHPFIM
          MPFS.SHNML.S.YPAE.EYPDLSS.NNHMAKVLTPEL.EKLRDKAT.SGF.LDDVIQTGVDNPGHPFIM
Retrocopy MPFSSSHNMLRSCYPAEQEYPDLSSDNNHMAKVLTPELHEKLRDKATLSGFTLDDVIQTGVDNPGHPFIM

Parental  TVGCVAGDEESYEVFKELFDPIIEDRHGGYKPSDEHKTDLNPDNLQGGDDLDPNYVLSSRVRTGRS-IRG
          TVGCVAGDEE.YEV.KELFDPIIEDRHG.YKPSDEHKTDLNPDNLQ.GDDLDPNYVLSSRV.T....IRG
Retrocopy TVGCVAGDEERYEVLKELFDPIIEDRHGSYKPSDEHKTDLNPDNLQDGDDLDPNYVLSSRV*TLGA<IRG

Parental  FCLPPHCSRGERRAIEKLSVEALASLEGDLNGKYYALKNMTEQEQQQLIDDHFLFDKPVSPLLLASGMAR
          .CLPPHCSRGE..AIEKLSVEALASLEGDLNGKYYALKNMTEQEQQQLIDDHFLFDKPVSPLLLASGMAR
Retrocopy ICLPPHCSRGEPGAIEKLSVEALASLEGDLNGKYYALKNMTEQEQQQLIDDHFLFDKPVSPLLLASGMAR

Parental  DWPDGRGIWHNDNKTFLVWINEEDHLRV
          DWPDGRGIWHNDNKTFLV.INEEDHLRV
Retrocopy DWPDGRGIWHNDNKTFLV*INEEDHLRV

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_1569 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_1569 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 7 parental genes, and 17 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000018277	5 retrocopies	retro_cfam_1828, retro_cfam_2061, retro_cfam_2159, retro_cfam_274, retro_cfam_664,
Ciona intestinalis	ENSCING00000007141	1 retrocopy	retro_cint_27,
Echinops telfairi	ENSETEG00000008667	1 retrocopy	retro_etel_1667,
Macropus eugenii	ENSMEUG00000002979	3 retrocopies	retro_meug_1069, retro_meug_1569 , retro_meug_2156,
Mus musculus	ENSMUSG00000001270	4 retrocopies	retro_mmus_1460, retro_mmus_1578, retro_mmus_1647, retro_mmus_2390,
Oryctolagus cuniculus	ENSOCUG00000008818	1 retrocopy	retro_ocun_1562,
Sarcophilus harrisii	ENSSHAG00000016459	2 retrocopies	retro_shar_432, retro_shar_645,