RetrogeneDB ID: retro_meug_350

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold103849:717..1221(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CNOT8
• Ensembl ID: ENSMEUG00000007427
• Aliases: None
• Description: CCR4-NOT transcription complex, subunit 8 [Source:HGNC Symbol;Acc:9207]

Sequence

>retro_meug_350
ATGCTAGCATCAACCATAGATCACAGCCAAAGAATTTATGAAGTTTGAGCTTGCAACCTGGATGAAAAGATGAAGAAAAT
TCTTCAGGTTATACGGCAGTATAATTACGTTGCCATGGACACCGAGTTTCCAGGTGTGGTTGCAAGAACCATTGGAGAAT
TCAGAAGCAATGCTGACTATGAGTGCCAGCTTTTGAGATGTAATGTAGACTTGCTAAAGATAATTGAGCTTGGATTGACA
TTTATGAATGAGCAAGGAGAATACCCTCCTGGAACTTCAACATGGCAGTCCAACTTCAAGTTTAATTTAACGAAGGATAT
GTATGCCCACAACTCCATAGAGCTCCTAACAACCTCTGGAATGCACTTAGAAAGGATGAAGAAGAACGGACTGAGATGCA
CCATTTTGCAAAACTTCTCCTGACATCGGGGCATTGTGCTGTGTAAGGGGATCAAGTGACTTTCATTTCACAGTGGTTAT
AACTTTGTGTAATTAATCAAAATC

Alignment

ORF - retro_meug_350 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 60.59 %
• Parental protein coverage: 69.14 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MPAALVENSQVICEVWASNLEEEMRKIREIVLSYSYIAMDTEFPGVVVRPIGEFRSSIDYQYQLLRCNVD
          M.A.....SQ.I.EV.A.NL.E.M.KI......Y.Y.AMDTEFPGVV.R.IGEFRS..DY..QLLRCNVD
Retrocopy MLASTIDHSQRIYEV*ACNLDEKMKKILQVIRQYNYVAMDTEFPGVVARTIGEFRSNADYECQLLRCNVD

Parental  LLKIIQLGLTFTNEKGEYPSGINTWQFNFKFNLTEDMYSQDSIDLLANSGLQ-FHKHEEEGIDTLHFAEL
          LLKII.LGLTF.NE.GEYP.G..TWQ.NFKFNLT.DMY...SI.LL..SG.....K.EEE.....HFA.L
Retrocopy LLKIIELGLTFMNEQGEYPPGTSTWQSNFKFNLTKDMYAHNSIELLTTSGMH<LRKDEEERTEMHHFAKL

Parental  LMTS-GVVLSDSVKWLSFHSGYDFGYMVKL
          L.TS.G.VL....K.LSFHSGY.F....K.
Retrocopy LLTS>GIVLCKGIK*LSFHSGYNFV*LIKI

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_350 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_350 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 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000014232	1 retrocopy	retro_dnov_446,
Macropus eugenii	ENSMEUG00000007427	8 retrocopies	retro_meug_1667, retro_meug_1677, retro_meug_1931, retro_meug_2053, retro_meug_350 , retro_meug_420, retro_meug_487, retro_meug_88,
Ochotona princeps	ENSOPRG00000013065	4 retrocopies	retro_opri_215, retro_opri_354, retro_opri_632, retro_opri_795,