RetrogeneDB ID: retro_meug_1466

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold415357:1521..2279(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: COPS6
• Ensembl ID: ENSMEUG00000010978
• Aliases: None
• Description: COP9 signalosome subunit 6 [Source:HGNC Symbol;Acc:21749]

Sequence

>retro_meug_1466
AGGGACAACCAGCCCCTGCAGGTGATTGGGGTGTTGATGGGGTAAAAGTAGAATTGAAATATTTAGGTGATGAATTCATT
TGAGCTGTTGTCCCACACAGTGGAGGAGAAGATCATCACTGACAAATAATAGTACTACATTAAAGAGAAGCAATTTAAGC
AGTTGTTCAAGGAATTGGAGTTTCTATGTTGGTATACCACAGGGGTCCACTAGATCCTTCTGACATCCACATCCACAAAC
AGGTGTATGGGATCATTGAGAACCCTCTGTTCCTGAAGCTAAATCCCATGATCAAGCACATTGATCTGCCACTCAGTATC
TTTGAGTCTGTCATTGACATCATCAATGGAAAGACAACAATGCTATTTGTTGAACTAAACTACCCACTAGCCACAAAGGA
GGCTGAATAGATTGGTATGGATCATGTGGTTCATATGATAGCTACAGGTAGTGGAGAGAACTCTACTGTAGCAGAGCACC
TAATAGCCCAGCATAGTGCTATTAATATGCTGCACAGTCGAGTCAAACTTTTCTTAGAATGCACCAACGCTTCTGAAGCA
AGGGAGGTTCCTTTTAATTATGAAATACTGTGTGAAATCTATGCTTTGCATCATTGCCTACCTGTGCTCTGTACAGATAA
GCTCAAGACAAATTTTGATGATCATTGTAATGATATTGAGCTCATGGTCTACCATGGAACCATCACCAAAACATGCAATC
CAATGAACCAGATTGTAAGTAAGTTCAGTGTCCTGTAT

Alignment

ORF - retro_meug_1466 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 70.47 %
• Parental protein coverage: 78.57 %
• Number of stop codons detected: 7
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  QEGRPVQVIGALIGKQEGRNIEVMNSFELLSHTVEEKIIIDKEYYYTKEEQFKQVFKELEFLGWYTTG-G
          ....P.QVIG.L.G.....NI.VMNSFELLSHTVEEKII.DK..YY.KE.QFKQ.FKELEFL.WYTTG.G
Retrocopy RDNQPLQVIGVLMG*K*N*NI*VMNSFELLSHTVEEKIITDK**YYIKEKQFKQLFKELEFLCWYTTG<G

Parental  PPDPSDIHVHKQVCEIIESPLFLKLNPMTKHTDLPVSVFESVIDIINGEATMLFAELTYTLATEEAERIG
          P.DPSDIH.HKQV..IIE.PLFLKLNPM.KH.DLP.S.FESVIDIING..TMLF.EL.Y.LAT.EAE.IG
Retrocopy PLDPSDIHIHKQVYGIIENPLFLKLNPMIKHIDLPLSIFESVIDIINGKTTMLFVELNYPLATKEAE*IG

Parental  VDHVARMTXXXXXXXXXXAEHIIAQHSAIKMLHSRVKLILEYVKASEAGEVPFNHEILREAYALCHCLPV
          .DHV..M...........AEH.IAQHSAI.MLHSRVKL.LE...ASEA.EVPFN.EIL.E.YAL.HCLPV
Retrocopy MDHVVHMIATGSGENSTVAEHLIAQHSAINMLHSRVKLFLECTNASEAREVPFNYEILCEIYALHHCLPV

Parental  LSTDKFKTDFYDQCNDVGLMAYLGTITKTCNTMNQFVNKFNVLY
          L.TDK.KT.F.D.CND..LM.Y.GTITKTCN.MNQ.V.KF.VLY
Retrocopy LCTDKLKTNFDDHCNDIELMVYHGTITKTCNPMNQIVSKFSVLY

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_1466 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_1466 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Macropus eugenii	ENSMEUG00000010978	1 retrocopy	retro_meug_1466 ,