RetrogeneDB ID: retro_meug_1916

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold7197:14017..14704(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: LANCL3
• Ensembl ID: ENSMEUG00000014625
• Aliases: None
• Description: LanC lantibiotic synthetase component C-like 3 (bacterial) [Source:HGNC Symbol;Acc:24767]

Sequence

>retro_meug_1916
GTATTGACCCCGGCACAGATCAAATCAATTTGCCACACAATTCTAGGATCAGGGAAGCAGTACACAGCAAAAAAGAGAAA
ATTATTTCCTTTAATATATTCTTATTGTGCAACTGAATACTTGAGTGCTGCTCATGGTCTGTCTTCCATTCTTCAGATGC
CGCTGTCTTACCATGAGCACCTCCAAACTGCTGATCAGGAGTTGGTCTGGCAGAGTGTTGACTTCCTTATGGAGCAGGAA
CAAAATTGCAACTGGCCTCCTGAGCTAGGAGAAATGATCGAGAGGGAAAATGATCTGGTCCATTGGTGTCATGGAGCTCC
AGGAATTGCCTACCTATTTGCCAAAGCATGCTTGGTTTCCAAGAAGTCTCAATATCTGGACACGTGTGTCCAGTGTGGAG
GACTCACATGGTGAAAGGGCCTTTTAAAGAAAGGACCTGGGATTCACCATGGTGTGGCTGGCAAAACCTATGTATTCCTC
CTGTTATATAGGCTGACTCCAAACTCCAAATATATCTACAGAGTGCAAAGTTTTGCAGAGTTCTTGTTTACAGAGGAATT
CAAAGCTGGTTCCCGGGCGCTGGAGAGTATTTACAGTCTGTATGAAAGCTTCTCTGGCACTGTGTGCTTTCTGATTGTCT
TGCTTCAACCTGGCCAGGCTGAATTACCTCTCCTCAGCGTCTTTGTT

Alignment

ORF - retro_meug_1916 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.46 %
• Parental protein coverage: 54.52 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  VLTPAQIKSICQAILESGKQYAAKKRKPFPLMYSYYGTEYLGAAHGLSSILQMLLSYHEHLQPADRELVW
          VLTPAQIKSIC..IL.SGKQY.AKKRK.FPL.YSY..TEYL.AAHGLSSILQM.LSYHEHLQ.AD.ELVW
Retrocopy VLTPAQIKSICHTILGSGKQYTAKKRKLFPLIYSYCATEYLSAAHGLSSILQMPLSYHEHLQTADQELVW

Parental  QSVDFLMEQEQNCNWPPELGEMIVRENELVHWCHGAPGIAYLFAKAYLVSKKPQYLDTCIRCGELTWRKG
          QSVDFLMEQEQNCNWPPELGEMI.REN.LVHWCHGAPGIAYLFAKA.LVSKK.QYLDTC..CG.LTW.KG
Retrocopy QSVDFLMEQEQNCNWPPELGEMIERENDLVHWCHGAPGIAYLFAKACLVSKKSQYLDTCVQCGGLTW*KG

Parental  LLKKGPGICHGVAGSAYVFLLLYRLTGNSKYIYRAQRFAEFLFTEEFKAGSRVLESIYSLYEGFSGTVCF
          LLKKGPGI.HGVAG..YVFLLLYRLT.NSKYIYR.Q.FAEFLFTEEFKAGSR.LESIYSLYE.FSGTVCF
Retrocopy LLKKGPGIHHGVAGKTYVFLLLYRLTPNSKYIYRVQSFAEFLFTEEFKAGSRALESIYSLYESFSGTVCF

Parental  LIDLLQPGQAEFPLFSVFV
          LI.LLQPGQAE.PL.SVFV
Retrocopy LIVLLQPGQAELPLLSVFV

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_1916 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_1916 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 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Macropus eugenii	ENSMEUG00000014625	1 retrocopy	retro_meug_1916 ,
Nomascus leucogenys	ENSNLEG00000000916	1 retrocopy	retro_nleu_2178,
Pan troglodytes	ENSPTRG00000021790	1 retrocopy	retro_ptro_3193,