RetrogeneDB ID: retro_meug_1028

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold262948:2348..3038(+)
• 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_1028
ACTGCCATCACCAAAAGGAGTGAGGACAAGATCATTGGTGGTCAAATGTGTATTCCCCGCTTCCAACCCTGGCAGGCATC
TCTCTTCATCTATCAAAGGTTCCACTGTGGGTATGTCCTACTGTCTTCACAGCTTCTCACTGGGCCCACCAGAACCTTTG
GGTGGTTCCAGGGAAATACACCCTTGGGCACTGGGAGCCCTCACAGCAATTGTTCAGCATGGACCATCAGCTGCCCTACC
CTAAGTACAATATCAATCTCAACAACCATGATCTCATTCTGCTTTACCTCAAGAAACCAGTGAATCTAACTCCTGAAGTT
CCACCCATTAAGCTGGCAAAAGGCAATTATCTATCCTAAGACAACTTGCCTGGTGTCAGGCTGGAGGACCATTTCTGCTC
TTTTGCCCAATTTCCTAGCACCTTGTAGTGTGTGAACATCAGTATCTCACATAAAGAAAAATACAAAAATTCCTACCCCG
GAGCCATCACCCCAGGCATGGTCTGTGCTGGGGACAGAAAGGGTGGGAAGGACTCCTGCCAGGATGAGTTAGGGCAGCCC
TTTGGCATATAATGGGGGCCTGCAGGGCCTTGTGCCTTGGGGCATGGAATACTGAGATCTGGTCAGGTATCCTGGTGTCT
ATACTACGCTGTGCCATTACCGAACCTGGATCCAAAATAAAATGCAGAAG

Alignment

ORF - retro_meug_1028 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 56.9 %
• Parental protein coverage: 99.58 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  TANGREDEEKIIGGYTCIPNSQPWQAALLANRQFRCGGVLLSNRWVLTA-AHCNHWNLRVVLGKHNIRLL
          TA.....E.KIIGG..CIP..QPWQA.L.....F.CG.VLLS....LT..AH.N.W...VV.GK......
Retrocopy TAITKRSEDKIIGGQMCIPRFQPWQASLFIYQRFHCGYVLLSSQ-LLTG<AHQNLW---VVPGKYTLGHW

Parental  EPSQQSVGVERRVPHPSYSPRTSNNDLMLLYLEKPVKLTNQVKPIQLAKN-CANPGTDCLVSGWGTVSS-
          EPSQQ........P.P.Y.....N.DL.LLYL.KPV.LT..V.PI.LAK.....P.T.CLVSGW.T.S..
Retrocopy EPSQQLFSMDHQLPYPKYNINLNNHDLILLYLKKPVNLTPEVPPIKLAKG>IIYPKTTCLVSGWRTISA<

Parental  PFARYPSTLQCLKISIFSEESCKNAYYGKAITPGMVCAGDKKGGKDSCQGDS-GGPLVCNGVLQGLVSWG
          .FA..PSTL.C..ISI...E..KN.Y.G.AITPGMVCAGD.KGGKDSCQ....G.PL..NG.LQGLV.WG
Retrocopy SFAQFPSTL*CVNISISHKEKYKNSYPG-AITPGMVCAGDRKGGKDSCQDEL>GSPLAYNGGLQGLVPWG

Parental  MEHCALPGYPGVYTNLCRYRTWILNEMQK
          ME...L..YPGVYT.LC.YRTWI.N.MQK
Retrocopy MEY*DLVRYPGVYTTLCHYRTWIQNKMQK

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_1028 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_1028 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,