RetrogeneDB ID: retro_meug_2060

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold8538:7402..8261(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSMEUG00000013370
• Aliases: None
• Description: None

Sequence

>retro_meug_2060
CTGACAGATCAGTCAGAGCTCTAGCTGCCCCTCTTCCTCCTATTCATTGGTAACTATGGGGTCACTGCAGGTGGGAACCT
GGGTATGATCATACTGATTAGACTCAGTTCTTTTCTTCATATCCCAATCCGCTATTTATTTTCCAGTTTATCTTTCATTG
ATCTCTGTCAACCATCATCATTCTCAAAATCTTGGTGAACTTTGTCTCAGAGAAAAATACTATCTCCTACCCTGGGTGCA
TGACAGTTCTATTTTTTGTCATTTTTTGTAATTTCTGAGTGTCAAATATTGTCTGTGTTGGTATATGATCACTGTTTTGC
TACATGTCATCTCCTTCTTTAGAGTCTCACCATGTCCTATCAGGTTTGCTCTTGGTTGGTGAGTGGGGTATATGCATTGG
GTCTAGTGAGAGGCCACTGTTCACACAGTCTGTTTGCTTAGAGTGCACTTCTGTAAGAAAAACTCTATCAGTCATTACTT
GTGTAATCTCCTTCTACTCTTGAAGCTCTCTTGTTCTAGTACCTATGTCAATGGAGTCCTGAATCTGGCATTCAATTCAT
TTAATGTCCTTTATCCAACCCTCCATTATTTGCTCTTATATTTTTATCGTTGCTAGCATTTTAAAAATTAGTCCACTGAA
GCCAGATCAAAAGCCTTCAGGACCTTCAGTTCCCTAGCAGTTGTTGTCTTCTTTGGCAATGGTATATTCATGTACCTGCA
ACCATCTTCCATCAGCTCTGTGGATCAGAGAAAAGTGTCCGCTGTCTTTTTCACTATCATTGTACCCATTCTAAATCCCC
ACATCTAAAGTCTGAGAAATAGGTGTGTCAAAATTGACTTGAACGAAGTTATAGAAAGA

Alignment

ORF - retro_meug_2060 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 55.07 %
• Parental protein coverage: 93.49 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 5

Retrocopy - Parental Gene Alignment:

Parental  LSDWPVLQIPLLLLFLSIYVATMVGNLGMITLIHISSHLHTPMYYLLRSLSFIDLCH-STVIIPKMLVNF
          L.D...L..PL.LLF...Y..T..GNLGMI.LI..SS.LH.P..YL..SLSFIDLC.....I..K.LVNF
Retrocopy LTDQSEL*LPLFLLFIGNYGVTAGGNLGMIILIRLSSFLHIPIRYLFSSLSFIDLCQ<TIIIL-KILVNF

Parental  VSEKNIISYNDCMTQLYFFLIF-VIAECHMLAAMAYDRYVAICRPLLYNV---HQVCIWLVGGVYIMGLV
          VSEKN.ISY..CMT.L.FF.IF.VI.EC..L....YD...A.C..LL.......QVC.WLV.GVY..GLV
Retrocopy VSEKNTISYPGCMTVL-FFVIF>VISECQILSVLVYDHCFATCHLLL*SLTMSYQVCSWLVSGVYALGLV

Parental  -GATVHTGFMLRVFFCKNNVINHYFCDLNPLLELACSSTYFNEVMVICLSGFNILIPIL-IIASSYIFII
          ..ATVHT...LRV.FCK.N.I.HY.C.L..LL.L.CSSTY.N.V.......FN.L.P.L.II..SYIFI.
Retrocopy >EATVHTVCLLRVHFCKKNSISHYLCNLLLLLKLSCSSTYVNGVLNLAFNSFNVLYPTL>IIC-SYIFIV

Parental  ASILHIR-STEREVQAFSTCSSHMAAVGFFFGSGAFMXXXPST-NSMDQGKVSSVFYSIVIPMLNPLIYS
          ASIL.I..STE....AF.T.SS...AV..FFG.G.FM...PS...S.DQ.KVS.VF..I..P.LNP.I.S
Retrocopy ASILKIS<STEARSKAFRTFSS--LAVVVFFGNGIFMYLQPSSISSVDQRKVSAVFFTIIVPILNPHI*S

Parental  LRNKDVKIALKKILEK
          LRN..VKI.L....E.
Retrocopy LRNRCVKIDLNEVIER

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_2060 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_2060 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 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Gorilla gorilla	ENSGGOG00000023114	6 retrocopies	retro_ggor_682, retro_ggor_683, retro_ggor_684, retro_ggor_756, retro_ggor_757, retro_ggor_758,
Macropus eugenii	ENSMEUG00000013370	4 retrocopies	retro_meug_2060 , retro_meug_2076, retro_meug_35, retro_meug_447,
Ochotona princeps	ENSOPRG00000013867	1 retrocopy	retro_opri_964,