RetrogeneDB ID: retro_meug_2053

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold84217:12066..12681(-)
• 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_2053
ATAGACACTGAGTTTCCCAGGTGTGGTTGCAAGAACCATTGGAGAATTCAGAAGTAATGCTCACTATCAGTACCAAGTTT
TGAGATGTAATTCAGACTTGCTAAAAATAGTCCAACTTGAATTAACATTAATGAATGAGCAAGGATAACACCTGCCAGGA
ACTTCAACATGGCAATTCAACTTCAAGTTTAATTTAACTGAGAACATGTATGCCCAGGACTCCATAGGGCTCTTACAACC
TCTGGAATGCAGTTTAAAAAGCATGAGGAGGAAGGGATTGAGATGCTGTATTTTGCAGAACTTCCCATGACATCGGGTGT
TGTGCTGTGTGAGAGGGTTAAGTGACTTTCATTTCACAGTGGTTATGACTTTGTCTATTTAATCAAAATCCTGACCAACT
CTAACTTGCCTGAGGAAGATCTGGACTTCTTTGAGATCCTCTGGCTGTTCTTTATGCTCATCTATGATGTTTAGTACCTT
ATGAAGAGCTACAGAAACCTCAAGGGTGGTCTGCAGGAGGTGGTCGAGCATCTGGAGTTGGAACAGATAGGACCCCAGCA
TCAGGCCAGATCTGATTCATTACTGACTGGAATGGCCTTTATCAAAATGAGAGAA

Alignment

ORF - retro_meug_2053 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 69.57 %
• Parental protein coverage: 84.36 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MDTEFP-GVVVRPIGEFRSSIDYQYQLLRCNVDLLKIIQLGLTFTNEKGEYPSGINTWQFNFKFNLTEDM
          .DTEFP.GVV.R.IGEFRS...YQYQ.LRCN.DLLKI.QL.LT..NE.G....G..TWQFNFKFNLTE.M
Retrocopy IDTEFP>GVVARTIGEFRSNAHYQYQVLRCNSDLLKIVQLELTLMNEQG*HLPGTSTWQFNFKFNLTENM

Parental  YSQDSIDLL-ANSGLQFHKHEEEGIDTLHFAELLMTSGVVLSDSVKWLSFHSGYDFGYMVKLLTDSRLPE
          Y.QDSI.LL...SG.QF.KHEEEGI..L.FAEL.MTSGVVL...VK.LSFHSGYDF.Y..K.LT.S.LPE
Retrocopy YAQDSIGLL<TTSGMQFKKHEEEGIEMLYFAELPMTSGVVLCERVK*LSFHSGYDFVYLIKILTNSNLPE

Parental  EEHEFFHILNLFFPSIYDVKYLMKSCKNLKGGLQEVADQLDLQRIGRQHQAGSDSLLTGMAFFRMKE
          E...FF.IL.LFF..IYDV.YLMKS..NLKGGLQEV...L.L..IG.QHQA.SDSLLTGMAF..M.E
Retrocopy EDLDFFEILWLFFMLIYDV*YLMKSYRNLKGGLQEVVEHLELEQIGPQHQARSDSLLTGMAFIKMRE

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_2053 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_2053 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,