RetrogeneDB ID: retro_meug_1959

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold74526:1975..2683(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSMEUG00000001969
• Aliases: None
• Description: None

Sequence

>retro_meug_1959
ACAGCCAACGCAGGGAGGAATGGAGAAAAGATCATTGGTGGTCATACGTGTATTCCCAACTCCCAGCCCTGGCAGGCAGC
ACTCTTAGCCAATCAGCAATTCCGCTGCGGGGGTGTCCTGCTGTCCAATCGTTGGGTTCTCACCGCAGCTCACTGGAACC
ACTGGAACCTTCGAGTGGTCTTGGGAAAGCACAATATTAGACGCCTGGAGCCCTCTCAGCAGTCAATTGGGGTGGAGGGT
TGAGTTCCCCACCCCTCCTATGGCCCCAGAACCAGCAACAATGACCTCATGCTCCTCTATCTGGAGAAGCCAGTGAAGTT
GACCAACCAAGTTCAACCCATTCAGCTGGCAAAAAATTGTGCCAATCCTGGCACAGACTGCCTGGTGTCCAGCTGGGGTA
CTGTGTCCAGTCCTTTTGCCAAATATCCCAGCACCCTCCAGTGTCTAAAGATCAGTATCTTTTCTGAGGAAAGCTGCAAA
AATGCTTACTATGGAAAAGTCATCACTCCTGGTATGGTGTCTGCTGGGGACAAGAAAGGTGGCAAGGATTCCTGCCAGGG
TGACTCTGGAGGCCCCTTGGTGTGCAATGGGGTCCTGCAGGGTCTGGTATCTTGGGGCATGGAACACTGTGCCCTGCCTG
GGTATCCTGGTGTTTATACCAACCTGTGCAGTTACCGGACCTGGATCTTAAATGAAATCCAGAAGAAT

Alignment

ORF - retro_meug_1959 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 91.53 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  TANGREDEEKIIGGYTCIPNSQPWQAALLANRQFRCGGVLLSNRWVLTAAHCNHWNLRVVLGKHNIRLLE
          TAN.....EKIIGG.TCIPNSQPWQAALLAN.QFRCGGVLLSNRWVLTAAH.NHWNLRVVLGKHNIR.LE
Retrocopy TANAGRNGEKIIGGHTCIPNSQPWQAALLANQQFRCGGVLLSNRWVLTAAHWNHWNLRVVLGKHNIRRLE

Parental  PSQQSVGVERRVPHPSYSPRTSNNDLMLLYLEKPVKLTNQVKPIQLAKNCANPGTDCLVSGWGTVSSPFA
          PSQQS.GVE..VPHPSY.PRTSNNDLMLLYLEKPVKLTNQV.PIQLAKNCANPGTDCLVS.WGTVSSPFA
Retrocopy PSQQSIGVEG*VPHPSYGPRTSNNDLMLLYLEKPVKLTNQVQPIQLAKNCANPGTDCLVSSWGTVSSPFA

Parental  RYPSTLQCLKISIFSEESCKNAYYGKAITPGMVCAGDKKGGKDSCQGDSGGPLVCNGVLQGLVSWGMEHC
          .YPSTLQCLKISIFSEESCKNAYYGK.ITPGMV.AGDKKGGKDSCQGDSGGPLVCNGVLQGLVSWGMEHC
Retrocopy KYPSTLQCLKISIFSEESCKNAYYGKVITPGMVSAGDKKGGKDSCQGDSGGPLVCNGVLQGLVSWGMEHC

Parental  ALPGYPGVYTNLCRYRTWILNEMQKN
          ALPGYPGVYTNLC.YRTWILNE.QKN
Retrocopy ALPGYPGVYTNLCSYRTWILNEIQKN

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_1959 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_1959 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 3 parental genes, and 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Macropus eugenii	ENSMEUG00000001969	7 retrocopies	retro_meug_1025, retro_meug_1028, retro_meug_1038, retro_meug_1108, retro_meug_1959 , retro_meug_2018, retro_meug_707,
Macropus eugenii	ENSMEUG00000014123	1 retrocopy	retro_meug_1950,
Monodelphis domestica	ENSMODG00000020815	1 retrocopy	retro_mdom_1516,