RetrogeneDB ID: retro_mluc_1012

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL429788:4949248..4950041(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMLUG00000027093
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSMLUG00000017740
• Aliases: None
• Description: None

Sequence

>retro_mluc_1012
CACCCCATCACCTCCCACCTCTGCAGGCCAAGTCTCCCCAGCAGATCATGGGCTTTCTAGTGAAGGATTACTTCTTCAGC
CAGAAGAACCTGTCCCCAGACAAGATTTTCCACGTCACTGTGGCCCTGTGTTATGACAAGAAACTGGAGGCCCTTCGAGA
AGATTTTCCCACAGCTTTACATAGTTCCCGGGGTGCTGACTGCGTGTTAACCTCAGGTGAAATTGTCCAGATAATGGAAC
AAAGTGACCTCACCTTGAATGATGCCACCTTGAACACTCTGTTTGGAGACATGAAGGAGGAGGAGATGAGGCTCCATGAG
GGTGCCAGCTCCGACGGGTACCTGGTGCACATCTTCAGGCACATGGCCAAGGAGCTGTTCAATGAGGACGTGGGAGTGCT
CACCTATCGCACCCTGAGGAACAAAGACTTCCAGGAGGTCACCCTTGAAAGGGATGGAGTGGTTCTGCTACGCTTTGAGG
CTGCTTAGGCTTTTGCAACATCCAGAAGTGGTCCTGAAGTTGTAGAGGGGGAAGTTCCCCTGCCACTTTGTGGAGGTCCT
GGCCTGCGCTGGGGATGCCTAAAGCGTCAGGGGCCAGGCCCAGGCAGAGGACGGGCGTGCAGACAGGGCACTGCTGCAGC
AGATGGAAGGCATCTACGCTGCCATCCCAGTGTGGCCCCCGGAGACTAGCGTCCATGTGCAGGAGCTGTACCAGGAGTGG
CTGGTGGGGGGACGACTCCCTCCGGGCCCAGGTAGCCCTGCACACCGCCTAGCAGGGCCCAGGGCAGCCTGCC

Alignment

ORF - retro_mluc_1012 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 80.51 %
• Parental protein coverage: 58.3 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  HPITPHLCT-AKSPQQIMGSLVKDYFARRQNLSPDKIFHVIVAPCYDKKLEALREDVPTALHSSRGADCV
          HPIT.HLC..AKSPQQIMG.LVKDYF....NLSPDKIFHV.VA.CYDKKLEALRED.PTALHSSRGADCV
Retrocopy HPITSHLCR<AKSPQQIMGFLVKDYFFSQKNLSPDKIFHVTVALCYDKKLEALREDFPTALHSSRGADCV

Parental  LTSGEIVQLMEQSDLSADDALVDTLLTRFGDVKEEEVRRHEGASSDGYLAHIFRHAAKELFNEDVGALTY
          LTSGEIVQ.MEQSDL...DA...TL...FGD.KEEE.R.HEGASSDGYL.HIFRH.AKELFNEDVG.LTY
Retrocopy LTSGEIVQIMEQSDLTLNDATLNTL---FGDMKEEEMRLHEGASSDGYLVHIFRHMAKELFNEDVGVLTY

Parental  RSLRNKDFQEVTLERDGEVLLRFAAA-YGFRNIQ-NVVLKLKRGKFPYHFVEVLACAGGCLSGRGQAQAE
          R.LRNKDFQEVTLERDG.VLLRF.AA..GF.NIQ..VVLKL.RGKFP.HFVEVLACAG...S.RGQAQAE
Retrocopy RTLRNKDFQEVTLERDGVVLLRFEAA<LGFCNIQ<EVVLKL*RGKFPCHFVEVLACAGDA*SVRGQAQAE

Parental  DGRADRALLRQMEGIYAAIPVRPPETSAHVQELYQEWL-GGADSPRPR-ALHTAYQGPGQSA
          DGRADRALL.QMEGIYAAIPV.PPETS.HVQELYQEWL.GG...P.P..ALHTA.QGPGQ.A
Retrocopy DGRADRALLQQMEGIYAAIPVWPPETSVHVQELYQEWLVGGRLPPGPG>ALHTA*QGPGQPA

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_1012 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 5 parental genes, and 27 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000018178	1 retrocopy	retro_btau_820,
Canis familiaris	ENSCAFG00000012976	1 retrocopy	retro_cfam_659,
Dasypus novemcinctus	ENSDNOG00000011246	1 retrocopy	retro_dnov_1757,
Echinops telfairi	ENSETEG00000009329	1 retrocopy	retro_etel_999,
Myotis lucifugus	ENSMLUG00000017740	23 retrocopies	retro_mluc_1006, retro_mluc_1012 , retro_mluc_1083, retro_mluc_1091, retro_mluc_1124, retro_mluc_1256, retro_mluc_1282, retro_mluc_1457, retro_mluc_1573, retro_mluc_1622, retro_mluc_1632, retro_mluc_1700, retro_mluc_1718, retro_mluc_1898, retro_mluc_1973, retro_mluc_2365, retro_mluc_671, retro_mluc_688, retro_mluc_817, retro_mluc_825, retro_mluc_877, retro_mluc_879, retro_mluc_982,