RetrogeneDB ID: retro_meug_1931

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold73064:3061..3603(-)
• 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_1931
TATCAGTACCAACTATTGAGAGATAATGTAGACTTGCTAAAGATAATTCTTCTTGAATCAACATTTATGAATGAACAAGT
TGAATACTCTCCAGGAACCTCAACATAGCAGTTCAAGTTTAATTTAATAGAGGACATATATGCCCAGGACTTCACAGATC
TCCTAAAAACCTTGGGAATCTGGTTTAAAAAGCACAAGGAAGAAGGGATTGAAACACATTATCTTACAGAACTTCATGCC
ATTGGGTGTTGTGCTGTGTGAAGGGGTCAAAGTGGCTTTCATTTCATAGTGTTTATGACTTTAGCTGTTTAATCAAACTC
CTGACCAACTCTAACTTGTCTGAAGACAAGTCAGACTTCTTCAAGATCCTCTGATTGTTCTCCTCAGTCATCTACGTCAA
GTACCTCATGAAGAGCTGCAAAATCCTCAAGGGTGGCCTGTCAGAAGTGGCTGAGTCACTGGAGTTGGAGCAGATAGGAC
CACAGCACCAGGCAGGAACCAATTCCTTGCTGAAGGAAGCTGTCTTTTCCAAAATGAGAGAA

Alignment

ORF - retro_meug_1931 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 60.22 %
• Parental protein coverage: 75.72 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  YQYQLLRCNVDLLKIIQLGLTFTNEKGEYPSGINTWQFNFKFNLTEDMYSQDSIDLLANSGLQFHKHEEE
          YQYQLLR.NVDLLKII.L..TF.NE..EY..G..T.QF..KFNL.ED.Y.QD..DLL...G..F.KH.EE
Retrocopy YQYQLLRDNVDLLKIILLESTFMNEQVEYSPGTST*QF--KFNLIEDIYAQDFTDLLKTLGIWFKKHKEE

Parental  GIDTLHFAELL-MTSGVVLSDSVK-WLSFHSGYDFGYMVKLLTDSRLPEEEHEFFHILNLFFPSIYDVKY
          GI.T.H....L.M..GVVL...VK.WLSFHS.YDF....KLLT.S.L.E....FF.IL.LF...IY.VKY
Retrocopy GIET-HYLTEL>MPLGVVLCEGVK>WLSFHSVYDFSCLIKLLTNSNLSEDKSDFFKIL*LFSSVIY-VKY

Parental  LMKSCKNLKGGLQEVADQLDLQRIGRQHQAGSDSLLTGMAFFRMKE
          LMKSCK.LKGGL.EVA..L.L..IG.QHQAG..SLL....F..M.E
Retrocopy LMKSCKILKGGLSEVAESLELEQIGPQHQAGTNSLLKEAVFSKMRE

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_1931 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_1931 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,