RetrogeneDB ID: retro_meug_1972

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold75796:4198..4750(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: NEIL1
• Ensembl ID: ENSMEUG00000010741
• Aliases: None
• Description: nei endonuclease VIII-like 1 (E. coli) [Source:HGNC Symbol;Acc:18448]

Sequence

>retro_meug_1972
CTGAGCCTACTGCTGGAGGCCCAGCCCACACAGGCACCCCTAGACCTTGTGTTCCCCTTTGGCATGTCCAGCTCCTTTCA
GCTGGTCCCAGTGGACTCTCTGCCCAAGCATGCCCACCTGCACTTCTACACAATCTCTCCTCTGCCTAGCCAAGCCCTCT
GTTTTGTGGACATCTGATGCTTTGGTCACTGGGAAGTTCAGGGCACATGGTAGCCTGGGCGAGGCCCCTGTTTTCTACTG
GAGTATGAGAAATTCAGGGAGAACGTGCTCCAGAGCTTGGCTGACAAGACTTCTAACAAGCCCATTTGAGCAGCTCTCCT
AGACCATAAATTCTTCAAAGGCACCAGCAACTATCTTTGGGTAGAGATTCTTCACCAAATGAAGACCCCTCTCTTGGAGA
AGGCCAGAACTGTCTTGGAGGCCCTGAAGCATCAGAAGCCAAACTTAGAACCGACCTTGAGCAAGAAGGTCGAGGCAAAA
CTAGAGAACCCAGATTTGCTGGAATTGTGCCACTTGGCACCTAAGGAGGTGATCCAACTAGGGGATAAGGGT

Alignment

ORF - retro_meug_1972 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 79.35 %
• Parental protein coverage: 63.45 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  LSPLPEAHPPQSPLDLVFRFGMSGSFQLVPADSLPKHAHLRFYTISPPPSRALCFVDIRRFGHWEVQGTW
          LS.L.EA.P.Q.PLDLVF.FGMS.SFQLVP.DSLPKHAHL.FYTISP.PS.ALCFVDI..FGHWEVQGTW
Retrocopy LSLLLEAQPTQAPLDLVFPFGMSSSFQLVPVDSLPKHAHLHFYTISPLPSQALCFVDI*CFGHWEVQGTW

Parental  QPGRGPCVLLEYEKFRENVLQNLDDKTFDKPICEALLDQKFFNGIGNYLRAEILHRLKIPPFEKARTVLE
          .PGRGPC.LLEYEKFRENVLQ.L.DKT..KPI..ALLD.KFF.G..NYL..EILH..K.P..EKARTVLE
Retrocopy *PGRGPCFLLEYEKFRENVLQSLADKTSNKPI*AALLDHKFFKGTSNYLWVEILHQMKTPLLEKARTVLE

Parental  ALKHWKPNPELTLSKKVKAKLENPDLLELCHLVPKEVIQLGGKG
          ALKH.KPN.E.TLSKKV.AKLENPDLLELCHL.PKEVIQLG.KG
Retrocopy ALKHQKPNLEPTLSKKVEAKLENPDLLELCHLAPKEVIQLGDKG

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_1972 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_1972 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	ENSMEUG00000010741	1 retrocopy	retro_meug_1972 ,