RetrogeneDB ID: retro_mluc_1501

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL429850:4773999..4774726(-)
• Located in intron of: ENSMLUG00000008030

Retrocopy information

• Ensembl ID: ENSMLUG00000022207
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: CLNS1A
• Ensembl ID: ENSMLUG00000024623
• Aliases: None
• Description: None

Sequence

>retro_mluc_1501
GCCCTCACTACCGCAAGGAGCTTCCTCAAAAGTTTCCCGCCACCCGGGTTGGCTGAGGGGCTCCGGCGGCAGCAGCCCGA
TACCGAGGCGGTGCTGAACGGGAAGGGCCTGGGCACCGGCACTCTTTACATCACTGAGAGCTGCCTGTCTTGGTTAGATG
GCTCTGGATTGGGATTCTCACTGGAATACCCCACCATTAGTTTGCATGCAGTGTCTAGGAACCTAAATGCCTATCCACGA
GAGCATTTATATGTTATGGTGAATGCCAAATTTGAAGAAGAATCAAACGAATCTGTTACTGATGAAGAAGAGGAAGACAG
TGATGATGACGTTGAACCTATTGCTGAATTTAGATTTGTGCCTAGTGATAAATCAGCATTGGAGGCAATGTTCACTGCAA
TGTGTGAATGCCAAGCTTTGCATCCAGATCCCGAGGACGAAGATTCAGATGATTACGATGGAGAAGAATATGATGTGGAA
GCACATGAACAAGGGCAGGGGGACATGCCTACATTTTACACCTATGAAGAAGGATTATTCCACTTAACGGCCGAAGGCCA
GGCCACACTGGAGAGATTCGAAGGAATGCTTTCTCAGTCTGTGAGCAGCCAGTATAACATGGCTGGAGTTCAGACAGAAG
ATTCAATAAGAGGATTATGAAGATGGGATGGAGGTAGATACTACACCCACAGTTGCTGGACAGTTTGAGGATGCAGTGGT
TGATCAC

Alignment

ORF - retro_mluc_1501 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 94.24 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  ALSTAMSFLKSFPPPGSAEGLRQQQPDTEAVLNGKGLGTGTLYIAESRLSWLDGSGLGFSLEYPTISLHA
          AL.TA.SFLKSFPPPG.AEGLR.QQPDTEAVLNGKGLGTGTLYI.ES.LSWLDGSGLGFSLEYPTISLHA
Retrocopy ALTTARSFLKSFPPPGLAEGLRRQQPDTEAVLNGKGLGTGTLYITESCLSWLDGSGLGFSLEYPTISLHA

Parental  VSRDLNAYPREHLYVMVNAKFEEESKESVTDEEEEDSDDDVEPIAEFRFVPSDKSALEAMFTAMCECQAL
          VSR.LNAYPREHLYVMVNAKFEEES.ESVTDEEEEDSDDDVEPIAEFRFVPSDKSALEAMFTAMCECQAL
Retrocopy VSRNLNAYPREHLYVMVNAKFEEESNESVTDEEEEDSDDDVEPIAEFRFVPSDKSALEAMFTAMCECQAL

Parental  HPDPEDEDSDDYDGEEYDVEAHEQGQGDIPTFYTYEEGLSHLTAEGQATLERLEGMLSQSVSSQYNMAGV
          HPDPEDEDSDDYDGEEYDVEAHEQGQGD.PTFYTYEEGL.HLTAEGQATLER.EGMLSQSVSSQYNMAGV
Retrocopy HPDPEDEDSDDYDGEEYDVEAHEQGQGDMPTFYTYEEGLFHLTAEGQATLERFEGMLSQSVSSQYNMAGV

Parental  RTEDSIR-DYEDGMEVDTTPTVAGQFEDADVDH
          .TEDSIR.DYEDGMEVDTTPTVAGQFEDA.VDH
Retrocopy QTEDSIR>DYEDGMEVDTTPTVAGQFEDAVVDH

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_1501 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 11 parental genes, and 20 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000004900	6 retrocopies	retro_cfam_1112, retro_cfam_1448, retro_cfam_255, retro_cfam_327, retro_cfam_720, retro_cfam_727,
Choloepus hoffmanni	ENSCHOG00000007254	1 retrocopy	retro_chof_1685,
Callithrix jacchus	ENSCJAG00000014927	1 retrocopy	retro_cjac_4085,
Cavia porcellus	ENSCPOG00000005260	1 retrocopy	retro_cpor_67,
Dasypus novemcinctus	ENSDNOG00000008188	1 retrocopy	retro_dnov_477,
Felis catus	ENSFCAG00000026321	1 retrocopy	retro_fcat_736,
Macropus eugenii	ENSMEUG00000005935	4 retrocopies	retro_meug_1825, retro_meug_2097, retro_meug_783, retro_meug_929,
Myotis lucifugus	ENSMLUG00000024623	2 retrocopies	retro_mluc_1501 , retro_mluc_1507,
Mustela putorius furo	ENSMPUG00000015944	1 retrocopy	retro_mputfur_435,
Oryctolagus cuniculus	ENSOCUG00000024393	1 retrocopy	retro_ocun_1303,
Tupaia belangeri	ENSTBEG00000001316	1 retrocopy	retro_tbel_2975,