RetrogeneDB ID: retro_mluc_1934

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL429956:768023..768797(+)
• Located in intron of: ENSMLUG00000009629

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSMLUG00000004806
• Aliases: None
• Description: None

Sequence

>retro_mluc_1934
TCCCAGCAGAGCAATCAGCCCTATAGACAGCAGAGTTATGGTGACTACAGCCAGTCAGGGGACACTTCAGGCTATGGCCA
GAGCACCTATGGTTCTTTTTTAGGACAAACCCAGAACAGCTAAGGCACTTGGTCAGCTCCCCAGGGATGTGGCTCAACTG
CTGGCTGTGGCAGTGGCCAGAGTTCTCAGTCATCTTATGGGCAGCAGTCCTACCCTGGCTATGGTCAGCAGCCGGCTCCT
AGCAGCACCTTGGGAAGTTACAGCAGCAGTTCTCAGAGCAGCAATTACAGGCAGCCCCAGAGCGGGACGATGGTCAGCAG
TCAGGCTATGGTGGACAACAGCCTAGCTGTGGTGCACACCAAAGCTCCTATAATCCTCCTCAGGGCTATGGGTAGCAGAA
CCAGTACAAGAGTAGCAGTGGAGGTAGAGGGGGTAGTAGAGGTAACTGTCGCCAAGATCAGTCCCCCATGAGTGGTTGCA
GCAGTGACGGTGGTTATCGAAATCAGGACCAGAGTGGTGGTGGTGGCAGTGCTACAGGAAAGGCCAGCAGGACCATGGGG
GACAAGGTCATGGCAATAGCAGCGATTACAACTGCAGCAAGGTGGCTATGAACCCAGAGGTCATGGAGGTGGCCAGGGAG
GCAGGGGTGGCATGGGTGGAAATAACCGTGGTGGCTTCAATAAATTTGGTGGGCCTCGGGACCAAGGATCACATCATGAT
TCTGAACAGGATAATTCAGACAACAGCAGCATCTCTGTGCAAGGCATGGGCAAG

Alignment

ORF - retro_mluc_1934 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 75.38 %
• Parental protein coverage: 50.29 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  SQQSSQPYGQQSYGGYSQSGDTSGYGQSTYGSY-GQTQNTGYGTQSAPQGYGSTGGYGGGQSSQSSYGQQ
          SQQS.QPY.QQSYG.YSQSGDTSGYGQSTYGS..GQTQN...GT.SAPQG.GST.G.G.GQSSQSSYGQQ
Retrocopy SQQSNQPYRQQSYGDYSQSGDTSGYGQSTYGSFLGQTQNS*-GTWSAPQGCGSTAGCGSGQSSQSSYGQQ

Parental  SYPGYGQQPAPSSTSGSYGSSSQSSNYGQPPSGGY-GQQSGYGGQQPSYGQQQSSYNPPQGYGQQNQYNS
          SYPGYGQQPAPSST.GSY.SSSQSSNY.QP.SG...GQQSGYGGQQPS.G..QSSYNPPQGYG.QNQY.S
Retrocopy SYPGYGQQPAPSSTLGSYSSSSQSSNYRQPQSGTM<GQQSGYGGQQPSCGAHQSSYNPPQGYG*QNQYKS

Parental  SSGGGGGGGGGNYGQDQSSMSGGS--GGYGNQDQSGGGGYGGGQQDR-GGRGRGGGGG--YNRS-SGGYE
          SS.GG.GG..GN..QDQS.MSG.S..GGY.NQDQSGGGG...G...R....G.G.G....YN.S..GGYE
Retrocopy SS-GGRGGSRGNCRQDQSPMSGCSSDGGYRNQDQSGGGGSATGKASR<DHGGQGHGNSSDYNCS<QGGYE

Parental  PRGRGGGRGGRGGMGGSDRGGFNKFGGPRDQGSRHDSEQDNSDNNTIFVQGLGE
          PRG.GGG.GGRGGMGG..RGGFNKFGGPRDQGS.HDSEQDNSDN..I.VQG.G.
Retrocopy PRGHGGGQGGRGGMGGNNRGGFNKFGGPRDQGSHHDSEQDNSDNSSISVQGMGK

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Myotis lucifugus was not studied using RNA-Seq expression data.

ChIP-Seq

Myotis lucifugus was not studied using ChIP-Seq data.

EST

Myotis lucifugus was not studied using EST data.

TSS

Myotis lucifugus was not studied using FANTOM5 data.

Lab

retro_mluc_1934 was not experimentally validated.

Homology

Retrocopy orthology:

Myotis lucifugus 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 6 parental genes, and 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Macropus eugenii	ENSMEUG00000000968	1 retrocopy	retro_meug_1986,
Myotis lucifugus	ENSMLUG00000004806	3 retrocopies	retro_mluc_1934 , retro_mluc_608, retro_mluc_638,
Myotis lucifugus	ENSMLUG00000012058	1 retrocopy	retro_mluc_328,
Macaca mulatta	ENSMMUG00000019637	1 retrocopy	retro_mmul_153,
Mus musculus	ENSMUSG00000030795	2 retrocopies	retro_mmus_2710, retro_mmus_2952,
Rattus norvegicus	ENSRNOG00000023360	4 retrocopies	retro_rnor_1439, retro_rnor_2727, retro_rnor_2894, retro_rnor_913,