RetrogeneDB ID: retro_meug_9

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: GeneScaffold_8341:2199..2964(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMEUG00000003223
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: YWHAE
• Ensembl ID: ENSMEUG00000015460
• Aliases: None
• Description: tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, epsilon polypeptide [Source:HGNC Symbol;Acc:12851]

Sequence

>retro_meug_9
ATGGAGAGAGGCAGACTGATCCAGAAGGCCAAGCTGGCGGAGCAGGCCGAGCGCTACGAGGACATGGCCGAGTTCATGAA
GGGCGCCGTGGAGAAAGGCGACGAGCTGTCGTGCGAGGAGCGCAACCTGCTGTCGGTGGCCTACAAGAACGTGGTGGGCG
GCCTGCGGGCGGCCTGGAGGGTGCTGTCCAGCATCGAGCAGAAGGGGGCCGAGGAGGACAGCGCCGAGGCCAAGGAGCGC
GAGCCCGAGGTGCGCGAGTACCGGGAGAAGGTGGAGGGCGAGCTGCGCGCCGTCTGCGGCATCGTGCTCGGCCTGCTCGA
CTCGCACCTCATCAAGGACGCGGGCGACGCCGAGAGCCGCGTCTTCTACCTGAAGATGAAGGGCGACTATTTCCGCTACC
TGGCCGAGGTGGGCACGGGCGACGACAAGAAGAGCACCATCGACTCGGCCCGCGCCGCCTACCAGGAGGCCATGGACATC
AGCAAGAAGGACATGCTGCCCACCAACCCCATCCGCCTGGGGCTGGCGCTGAACTTTTCCGTCTTCCACTACGAGATCGC
CAGCAGCCCCGAGGAGGCCATCTCTCTGGCCAAGACCACCTTCGACGAGGCCATGACCGAACTGCACACCCTGAGCGAGG
ACTCCTACAAGGACAGCACCCTCATCATGCAGCTGCTGCGAGACAACCTGACCCTCTGGACGGCGGACAGCGCCGGGGAG
GAGGGCGGCGAGGCACCGCCCCCCGAGGAGCAGCCCCAGAGCTGA

Alignment

ORF - retro_meug_9 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 58.58 %
• Parental protein coverage: 99.16 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  DREDLVYQAKLAEQAERY-DMVESMKKVAGMDVELTVEERNLLSVAYKNVIGARRASWRIISSIEQK---
          .R..L...AKLAEQAERY.DM.E.MK.......EL..EERNLLSVAYKNV.G..RA.WR..SSIEQK...
Retrocopy ERGRLIQKAKLAEQAERYEDMAEFMKGAVEKGDELSCEERNLLSVAYKNVVGGLRAAWRVLSSIEQKGAE

Parental  EENKGGEDKLKMIREYRQMVETELKLICCDILDVLDKHLIPAANTGESKVFYYKMKGDYHRYLAEFATGN
          E............REYR..VE.EL...C...L..LD.HLI..A...ES.VFY.KMKGDY.RYLAE..TG.
Retrocopy EDSAEAKEREPEVREYREKVEGELRAVCGIVLGLLDSHLIKDAGDAESRVFYLKMKGDYFRYLAEVGTGD

Parental  DRKEAAENSLVAYKAASDIAMTELPPTHPIRLGLALNFSVFYYEILNSPDRACRLAKAAFDDAIAELDTL
          D.K........AY..A.DI......PT.PIRLGLALNFSVF.YEI..SP..A..LAK..FD.A..EL.TL
Retrocopy DKKSTIDSARAAYQEAMDISKKDMLPTNPIRLGLALNFSVFHYEIASSPEEAISLAKTTFDEAMTELHTL

Parental  SEESYKDSTLIMQLLRDNLTLWTSDMQGD
          SE.SYKDSTLIMQLLRDNLTLWT.D..G.
Retrocopy SEDSYKDSTLIMQLLRDNLTLWTADSAGE

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_9 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_9 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 6 parental genes, and 26 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000010861	2 retrocopies	retro_chof_1912, retro_chof_905,
Ciona intestinalis	ENSCING00000023856	1 retrocopy	retro_cint_15,
Ciona savignyi	ENSCSAVG00000011723	2 retrocopies	retro_csav_13, retro_csav_9,
Macropus eugenii	ENSMEUG00000014442	7 retrocopies	retro_meug_1122, retro_meug_1208, retro_meug_1259, retro_meug_1549, retro_meug_1918, retro_meug_2106, retro_meug_538,
Macropus eugenii	ENSMEUG00000015460	12 retrocopies	retro_meug_1290, retro_meug_1396, retro_meug_1536, retro_meug_16, retro_meug_1926, retro_meug_196, retro_meug_2153, retro_meug_2163, retro_meug_835, retro_meug_9 , retro_meug_982, retro_meug_986,
Oryctolagus cuniculus	ENSOCUG00000014607	2 retrocopies	retro_ocun_1062, retro_ocun_1576,