RetrogeneDB ID: retro_meug_1069

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold27556:2105..2796(+)
• 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_1069
ATGCCAATCTCCAATAGCCACAACATGCTGAAGTCCCACTACTCCGCTGAGGAGTAATATCCTGACCTCTCCTTGCACAA
CAACCACATGGCTAAGGTGCTGACACCTGAGCTCTATGAAAAACTCCGGGATAAAGCTACATCAAACGGCTTCACCCTGG
ATGATGTCATCCAACCGGTGTGGACAACCCAGGGCACCCATTTATCATGACTGTGGGCTGTGTGGCTGGAGATGAAGAGA
GCTACAAAGTGTTTAAGGAACTGTTTGATCCCATTATTGAGGACTGACATGGAGGCTACAAGCCTTCTGATGAGCATAAG
ACTGATCTTAACCCTGACAATCTGCAGGTTGGTGATGACCTGGAACTGAACTATGTGCTGAGTTCTCGTGTTCAAACTGG
CTGGATCATCTGAGGATTCTGCCTGTCTCCACGTTGTAGCCAGGGTGAGCGCCATGCCATAGAGAAGCTCTCTGTGGAAG
CTCTGGCCAGCCTGGCAGGTGACCTGAATGGGAAGTACTATGCTTTGAAGAACATGACTGAGCAAGAACAGTAGCAGCTG
ATTGATGACCACTTCCTCTTCGACAAGCCTACCTCCCCACTCCTCTTAGCTTGGGCATGGCCCGAGACTGGCCCAATGGC
AGGGGCATTTGGCACAATGATAACAAGACCTTTCTGGTGTAGATCAATGAG

Alignment

ORF - retro_meug_1069 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 87.98 %
• Parental protein coverage: 61.11 %
• Number of stop codons detected: 5
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MPFSNSHNMLKSRYPAEEEYPDLSSHNNHMAKVLTPELYEKLRDKATSSGFCLDDVIQ-TGVDNPGHPFI
          MP.SNSHNMLKS.Y.AEE.YPDLS.HNNHMAKVLTPELYEKLRDKATS.GF.LDDVIQ.TGVDNPGHPFI
Retrocopy MPISNSHNMLKSHYSAEE*YPDLSLHNNHMAKVLTPELYEKLRDKATSNGFTLDDVIQ<TGVDNPGHPFI

Parental  MTVGCVAGDEESYEVFKELFDPIIEDRHGGYKPSDEHKTDLNPDNLQGGDDLDPNYVLSSRVRTGRSIRG
          MTVGCVAGDEESY.VFKELFDPIIED.HGGYKPSDEHKTDLNPDNLQ.GDDL..NYVLSSRV.TG..I.G
Retrocopy MTVGCVAGDEESYKVFKELFDPIIED*HGGYKPSDEHKTDLNPDNLQVGDDLELNYVLSSRVQTGWII*G

Parental  FCLPPHCSRGERRAIEKLSVEALASLEGDLNGKYYALKNMTEQEQQQLIDDHFLFDKPVSPLLLA-SGMA
          FCL.P.CS.GER.AIEKLSVEALASL.GDLNGKYYALKNMTEQEQ.QLIDDHFLFDKP.SPLLLA..GMA
Retrocopy FCLSPRCSQGERHAIEKLSVEALASLAGDLNGKYYALKNMTEQEQ*QLIDDHFLFDKPTSPLLLA<LGMA

Parental  RDWPDGRGIWHNDNKTFLVWINE
          RDWP.GRGIWHNDNKTFLV.INE
Retrocopy RDWPNGRGIWHNDNKTFLV*INE

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_1069 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_1069 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,