RetrogeneDB ID: retro_mluc_1256

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL429809:5713639..5714324(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMLUG00000027288
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

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

Sequence

>retro_mluc_1256
CCTCAGCAGGTCATGGGCTCTCTGGTGAAGGATTACTTCACCAGATGGCAGAACCTGTCCCCAGACAAAATTTCCCACGT
CATTGTGGCCCCATGTTATGACAAGAAACTGGAGGCCCTTTGAGAAGATGTTCCCACAGCTTTACATAGTTCCCAGGGTG
CTAACTGCATGTTAACCTCAGGTGAAATTGTCCAGATAATGGAGCAAAGTGACCTCGCCTCGAATGACACCGCCGTGGAC
ACTCTGTTTGGAGACATGAAGGAGAAGGAGGTGAGGCTCCGTGAGGGTAGCAGCTCTGACGGGTACCTGGCGCACATCTT
CAGGCACATGGCCAAGGAGCTGTTCAACGAGGACGTGGGGGTACTCACCTACCGCACTCTGAGGAACAAAGACTTCCAGG
AGGTTACCCGTGAAAGGGATGGAGAGGTTCTGCTACACTTTGAGGCTGCTTACGGCTTTCGGAACATCCAGAAGTGGTCC
TGAAGCTGTAGAGGGGCAAGTTCCCCTGCTACTTCATGGAGGTCCTGGCCTGCGCCGGGCATGCCTAAGTGGCAGGGGTC
AGGCCCACGCGGACGACGGGTGTGCAGACAGGGCACTGCTGCGGCAGATGGAAGGCATCTATGCTGCCATCCCGGTGTGG
CTCCCGGAGACCAGTGCCCATGTGCAGGAGCTGTACCAGGAGTGG

Alignment

ORF - retro_mluc_1256 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.48 %
• Parental protein coverage: 50.66 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  PQQIMGSLVKDYFARRQNLSPDKIFHVIVAPCYDKKLEALREDVPTALHSSRGADCVLTSGEIVQLMEQS
          PQQ.MGSLVKDYF.R.QNLSPDKI.HVIVAPCYDKKLEAL.EDVPTALHSS.GA.C.LTSGEIVQ.MEQS
Retrocopy PQQVMGSLVKDYFTRWQNLSPDKISHVIVAPCYDKKLEAL*EDVPTALHSSQGANCMLTSGEIVQIMEQS

Parental  DLSADDALVDTLLTRFGDVKEEEVRRHEGASSDGYLAHIFRHAAKELFNEDVGALTYRSLRNKDFQEVTL
          DL...D..VDTL...FGD.KE.EVR..EG.SSDGYLAHIFRH.AKELFNEDVG.LTYR.LRNKDFQEVT.
Retrocopy DLASNDTAVDTL---FGDMKEKEVRLREGSSSDGYLAHIFRHMAKELFNEDVGVLTYRTLRNKDFQEVTR

Parental  ERDGEVLLRFAAAYGFRNIQ-NVVLKLKRGKFPYHFVEVLACAG-GCLSGRGQAQAEDGRADRALLRQME
          ERDGEVLL.F.AAYGFRNIQ..VVLKL.RGKFP..F.EVLACAG..CLSGRGQA.A.DG.ADRALLRQME
Retrocopy ERDGEVLLHFEAAYGFRNIQ<EVVLKL*RGKFPCYFMEVLACAG<ACLSGRGQAHADDGCADRALLRQME

Parental  GIYAAIPVRPPETSAHVQELYQEW
          GIYAAIPV..PETSAHVQELYQEW
Retrocopy GIYAAIPVWLPETSAHVQELYQEW

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_1256 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,