RetrogeneDB ID: retro_mluc_1507

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL429851:2399229..2399886(-)
• Located in intron of: ENSMLUG00000011965

Retrocopy information

• Ensembl ID: ENSMLUG00000029841
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

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

Sequence

>retro_mluc_1507
CCAGATACCAACGAGGTGCTCAACGGGAAGGGCTTGGGCACCGGCACTCAGCACTCTTTACATCGCTGAGAGCCGCTTGT
CTTGGTTAGATGGCTCTGGACTGGGGTTCTCACTGGAATACCCCACCATTAGTTTACATGCAGTGTCCAGGGACCTAAAT
GCCTATCCATGAGAGCATTTATATGTTATGGTGAATGCCAAATTTGAAGAAGAATCGAAAGACTCTGTTACTGATGAAGA
AGAGGAAGACAGTGAAGAGGATGTTGAACCTATTGCTGAATTTAGATTTGTGCCTAGTGGTAAATCAGCATTGGAGGCAA
TGTTCACTGCAATGTGTGAATGCCAGGCTTTGCATCCAGATCCCGAGGATGAAGATTCAGATGATTATGATGGAGAAGAA
TATGATGTGGAAGCACATGAACAAGGTCAGGGGGACATCCCTACATTTTACACCTGTGAAGAAGGATTATCCCACTTAAC
AGCCGAAGGCCAGGCCACATTGGAGAGATTAGAAGGAATGCTTTCTCAGTCTGTGAGCAGCCAGTATAACAAGGCTGGAG
TCCAGACAGAAGATTCAGTAAGAGATTATGAAGGTGGGATGGAGGTAGATACTACACCCACGTTGCTGGACAGTGTGAGG
ATGCAGATGTTGATCAC

Alignment

ORF - retro_mluc_1507 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 91.86 %
• Parental protein coverage: 89.67 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  PDTEAVLNGKGL--GT-GTLYIAESRLSWLDGSGLGFSLEYPTISLHAVSRDLNAYPREHLYVMVNAKFE
          PDT..VLNGKGL..GT..TLYIAESRLSWLDGSGLGFSLEYPTISLHAVSRDLNAYP.EHLYVMVNAKFE
Retrocopy PDTNEVLNGKGLGTGT>STLYIAESRLSWLDGSGLGFSLEYPTISLHAVSRDLNAYP*EHLYVMVNAKFE

Parental  EESKESVTDEEEEDSDDDVEPIAEFRFVPSDKSALEAMFTAMCECQALHPDPEDEDSDDYDGEEYDVEAH
          EESK.SVTDEEEEDS..DVEPIAEFRFVPS.KSALEAMFTAMCECQALHPDPEDEDSDDYDGEEYDVEAH
Retrocopy EESKDSVTDEEEEDSEEDVEPIAEFRFVPSGKSALEAMFTAMCECQALHPDPEDEDSDDYDGEEYDVEAH

Parental  EQGQGDIPTFYTYEEGLSHLTAEGQATLERLEGMLSQSVSSQYNMAGVRTEDSIRDYEDGMEVDTTPT-V
          EQGQGDIPTFYT.EEGLSHLTAEGQATLERLEGMLSQSVSSQYN.AGV.TEDS.RDYE.GMEVDTTPT.V
Retrocopy EQGQGDIPTFYTCEEGLSHLTAEGQATLERLEGMLSQSVSSQYNKAGVQTEDSVRDYEGGMEVDTTPT<V

Parental  AGQFEDADVDH
          AGQ.EDADVDH
Retrocopy AGQCEDADVDH

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_1507 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,