RetrogeneDB ID: retro_mluc_2238

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL430140:195999..197403(+)
• Located in intron of: ENSMLUG00000023619

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSMLUG00000004172
• Aliases: None
• Description: None

Sequence

>retro_mluc_2238
GGTGTGGACCACATAGACATTTACGCGGATGTAGGCGAAGAGTTCAACCAGGAAGCTGAATATGGTGGGCATGATCAGAT
AGATTTGTATGATGATGTCATCTCTCCATCCTCAAATAATGGAGATGCCCCAGAAGACCGGGATTACATGGATACTCTCC
CACCAACTGTTGGTGATGATGTGGGTAAAGGAGCAGCACCAAATGTTGTCTATACATATACGGGAAAGAGAATTGCATTA
TACACTGGAAATCTAACATGGTGGACAACAGATGAAGACTTAACTGAAGCAGTGCATTCTTTGGGAGTAAATAATATTTT
GGAGATAAAGTTTTTTGAAAACCGGGCAAATGGCCAATCAAAGGGGTTTGCCCTTGTTGGTGTTGGATCTGAAGCATCCT
CAAAAAAGTTAATGGATCTGTTGCCTAAAAGAGAACTTCATGGTCAGAATCCTGTTGTAACTCCATGCAATAAACAGTTC
CTGAGTCAGTTTGAAATGCAGTCCAGGAAAACTACACAATCAGGACAAATGTCTGGGGAAGGTAAAGCTGGTCCTCCAGG
AGGCAGTTCACGTGCAGCATTTCCACAAGGTGGTAGAGGACGGGGCCGTTTTCCAGGGGCTGTTCCCGGTGGGGACAGAT
TTCCTGGGCCAGCAGGACCAGGAGGGCCACCCCCACCTTTTCCAGCTGGACAGACTCTACCACGTCCACCCTTAGGTCCT
CCAGGCCCACCTGGTCCACCAGGTCCACCTCTACCTGGTCAGGTTCTGCCACCTCCTTTAGCTGGGCCTCCTAATCGAGG
AGATCGCCCTCCACCGCCAGTTCTTTTTCCTGGACAACCTTTTGGGCAGCCTCCTTTGGGTCCGCTTCCTCCTGGTCCTC
CACCTCCAGTTCCAGGCTACGGTCCCCCTCCTGGTCCACCACCTCCACAACAGGGACCACCTCTACCTCCAGGCCCCTTT
CCACCTCGTCCACCTGGTCCTCTTGGGCCACCCCTTACACTTGCTCCTCCTCCGCATCTTCCTGGACCACCTCCAGGTGC
CCCACTGCCAGCTCCACATGTGAACCCAGCTTTCTTTCCTCCACCAACTAACAGCGGCATGCCTACATCAGATAGTCGGG
GTCCACCATCAACAGATCCATATGGCTGACCTCCGCCATATGATAGGGGTGACTATGGGCCTCCTGGAAGGGAAATGGAT
ATGGCAAGAACTCCACTGAGTGAAGCTGAGTTTGAAGAAATCATGAATAGAAATAGGGCAATCTCAAGCAGTGCTATTTC
AAGAGCCGTGTCTGATGCCAGTGCTGGTTTGTGTGATTATGGGAGTGCAATTGAGACATTGGTAACTGCAATTTCTTTAA
TTAAACAATCCAAAGTATCTGCTGATGATCGTTGCAAAGTTCTT

Alignment

ORF - retro_mluc_2238 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 92.09 %
• Parental protein coverage: 86.62 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  GIVYVNIFLDLQPMKNQEAEYGGHDQIDLYDDVISPSANNGDAPEDRDYMDTLPPTVGDDVGKGAAPNVV
          G.....I..D.....NQEAEYGGHDQIDLYDDVISPS.NNGDAPEDRDYMDTLPPTVGDDVGKGAAPNVV
Retrocopy GVDHIDIYADVGEEFNQEAEYGGHDQIDLYDDVISPSSNNGDAPEDRDYMDTLPPTVGDDVGKGAAPNVV

Parental  YTYTGKRIALYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMDL
          YTYTGKRIALY.GNLTWWTTDEDLTEAVHSLGVN.ILEIKFFENRANGQSKGFALVGVGSEASSKKLMDL
Retrocopy YTYTGKRIALYTGNLTWWTTDEDLTEAVHSLGVNNILEIKFFENRANGQSKGFALVGVGSEASSKKLMDL

Parental  LPKRELHGQNPVVTPCNKQFLSQFEMQSRKTTQSGQMSGEGKAGPPGGSSRAAFPQGGRGRGRFPGAVPG
          LPKRELHGQNPVVTPCNKQFLSQFEMQSRKTTQSGQMSGEGKAGPPGGSSRAAFPQGGRGRGRFPGAVPG
Retrocopy LPKRELHGQNPVVTPCNKQFLSQFEMQSRKTTQSGQMSGEGKAGPPGGSSRAAFPQGGRGRGRFPGAVPG

Parental  GDRFPGPAGPGGPPPPFPAGQTPPRPPLGPPGPPGPPGPPPPGQVLPPPLAGPPNRGDRPPPPVLFPGQP
          GDRFPGPAGPGGPPPPFPAGQT.PRPP..............PGQVLPPPLAGPPNRGDRPPPPVLFPGQP
Retrocopy GDRFPGPAGPGGPPPPFPAGQTLPRPPXXXXXXXXXXXXXLPGQVLPPPLAGPPNRGDRPPPPVLFPGQP

Parental  FGQPPLGPLPPGPPPPVPGYGPPPGPPPPQQGPPPPPGPFPPRPPGPLGPPLTLAPPPHLPGPPPGAPPP
          FGQPPLGPLPPGPPPPVPGYGPPPGPPPPQQGPP.PPGPFPPRPPGPLGPPLTLAPPPHLPGPPPGAP.P
Retrocopy FGQPPLGPLPPGPPPPVPGYGPPPGPPPPQQGPPLPPGPFPPRPPGPLGPPLTLAPPPHLPGPPPGAPLP

Parental  APHVNPAFFPPPTNSGMPTSDSRGPPPTDPYGRPPPYDRGDYGPPGREMDTARTPLSEAEFEEIMNRNRA
          APHVNPAFFPPPTNSGMPTSDSRGPP.TDPYG.PPPYDRGDYGPPGREMD.ARTPLSEAEFEEIMNRNRA
Retrocopy APHVNPAFFPPPTNSGMPTSDSRGPPSTDPYG*PPPYDRGDYGPPGREMDMARTPLSEAEFEEIMNRNRA

Parental  ISSSAISRAVSDASAG--DYGSAIETLVTAISLIKQSKVSADDRCKVL
          ISSSAISRAVSDASAG..DYGSAIETLVTAISLIKQSKVSADDRCKVL
Retrocopy ISSSAISRAVSDASAGLCDYGSAIETLVTAISLIKQSKVSADDRCKVL

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_2238 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 3 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Microcebus murinus	ENSMICG00000007385	1 retrocopy	retro_mmur_1005,
Myotis lucifugus	ENSMLUG00000004172	3 retrocopies	retro_mluc_2155, retro_mluc_2238 , retro_mluc_2588,
Monodelphis domestica	ENSMODG00000007123	1 retrocopy	retro_mdom_1019,