RetrogeneDB ID: retro_meug_724

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold16927:9840..10255(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: COPS7A
• Ensembl ID: ENSMEUG00000010451
• Aliases: None
• Description: COP9 signalosome subunit 7A [Source:HGNC Symbol;Acc:16758]

Sequence

>retro_meug_724
ATGGCAGATCTTGTGATTGAGGCTGTGTATGCAGATGTCTTCCAAGGCTCCCTGGACCAAGAGAACAAGCGGCTTGAAGT
AGACTATAGCATTGGGCAGGACATGTACGGCCAGGACCTCTGTTCCATTGCTCAAACCCTCCAGGAATGGTGTATGGGCT
ATGAAGGAGTGTTGTCATCACTGAGGAACAGATGAGCCGTGCCAACCAACATAAAGGACAACAGCTGGGCCTGAAGCAGC
AGATGAGAGGGAGGTGGGCAACCTGAAGAAAACTATTTAGGTAAAAACAGCAGCAGTAGCTACAGCCACATCCCAGGATC
CAGAACAATATCTGACAGAGCTGAGGGAGCCTGCCCCAGGTACCAACCAGTGCTGGCCCAGCAAGAAGACTTATAAGGGA
AAAGGGAGGGCTTCT

Alignment

ORF - retro_meug_724 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 76.6 %
• Parental protein coverage: 50.55 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  LEDLVIEAVYADVLRGSLDQRNQRLEVDYSIGRDIQRQDLSSIAQTLQEWCMGCEVVLSGI-EEQVSRAN
          ..DLVIEAVYADV..GSLDQ.N.RLEVDYSIG.D...QDL.SIAQTLQEWCMG.E.VLS...EEQ.SRAN
Retrocopy MADLVIEAVYADVFQGSLDQENKRLEVDYSIGQDMYGQDLCSIAQTLQEWCMGYEGVLSSL<EEQMSRAN

Parental  QHKEQQLGLKQQI-ESEVANLKKTIKVTTAAAAAATSQDPEQHLTELREPAPGTNQRQPSKKASKGKGLR
          QHK.QQLGLKQQ..E.EV.NLKKTI.V.TAA.A.ATSQDPEQ.LTELREPAPGTNQ..PSKK..KGKG..
Retrocopy QHKGQQLGLKQQM<EREVGNLKKTI*VKTAAVATATSQDPEQYLTELREPAPGTNQCWPSKKTYKGKGRA

Parental  S
          S
Retrocopy S

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_724 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_724 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 5 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Loxodonta africana	ENSLAFG00000004634	1 retrocopy	retro_lafr_297,
Macropus eugenii	ENSMEUG00000010451	1 retrocopy	retro_meug_724 ,
Microcebus murinus	ENSMICG00000013661	1 retrocopy	retro_mmur_1458,
Oryctolagus cuniculus	ENSOCUG00000011187	1 retrocopy	retro_ocun_1086,
Ictidomys tridecemlineatus	ENSSTOG00000027250	1 retrocopy	retro_itri_538,