RetrogeneDB ID: retro_mluc_1360

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL429827:6413798..6414746(+)
• Located in intron of: ENSMLUG00000002214

Retrocopy information

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

Parental gene information

• Parental gene symbol: ZCCHC4
• Ensembl ID: ENSMLUG00000004225
• Aliases: None
• Description: None

Sequence

>retro_mluc_1360
ATGGTGACCCTCAGGGACAGACTGGGGGCCGGGGAGGGAGAGGGGAGCATGAGCAGCCCGGGCAGCTCAGGAGTGGAGGT
GGTGCTTTCCTCCAATCTGCCATCCCCATCCCCACCATCCCCGCCCCATGGTGCCCTCACAGACCCACTCTTTTGCTTGT
AAAGGTGAGCCAAGGGAAAGAAGACACACGGAGGTTTTATGCCTGCTCGGCCTGTCGAGATAGAAAAGATTGTAATTTTT
TTCAATGGGAAGATGAAAAGTTGTCAGGTGCTAGATGTGCTGGCCAAGAAGCTCATAACCAAAGATGTCAGCCTCCTCTC
TCCCGAATGCAGTGTGTGCAAAGGTATTTGAAGTTCATTGAGTTGCCATTGTGTCAGAGAAAGTTTTGTCAAAGGTGTCA
GCAGTTGCTCCTGCCAGATGACTAGGAGAAGCATCATGAGCCCCAGGTCATGGGTGATATTTCTGTCACCCAGTTAAAAA
GGCCCAGTCAGCTCCTTTCTCCGTTGGAAAACAAGAAGACAAATGCGCAGTATTTGTTTGCTGATAGGAGCTGTCAGTTC
TTGATAGACCTACTTTCTACCCTTGGGTTCAGAAGAGTGTTGTGTGTTGGAACACTGAGGTTGCATGAGCTGATCTGGTT
GAAAGCATCAGGTGACAAGAAGCCTAACATTAAAAGTCTTTTATTGGATATTGATTTTCGGTATTCGCAGTTTTATATGG
AAGATAGCTTTTGCCATTGTAACATGTTTAACCATCACTTCTTTGATGGAGAGGCTGCCTTTGAAGTATGCAGAACATTT
TTTACAGGAAGATAAAGGTGAAGGAGTCATTATGGTGACAGACCCTCCTTTTGGTGGCTTCGTTGAACCTCTGGCTGTTA
TATTCAAGAAATTAATTGCTATGTGGAAAAAAGGTCAAAGTCAAGATAACAATCACAAAGAACTACCT

Alignment

ORF - retro_mluc_1360 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.79 %
• Parental protein coverage: 65.62 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MATLRDRLGAGEAEGSASSPGSSGVEVVLSSDPATPAPRC-PHVLELGPTLLFVKVSQGK-EDTRRFYAC
          M.TLRDRLGAGE.EGS.SSPGSSGVEVVLSS....P.P...PH.....P.........GK.EDTRRFYAC
Retrocopy MVTLRDRLGAGEGEGSMSSPGSSGVEVVLSSNLPSPSPPSPPHGALTDPLFCL*R*AKGK<EDTRRFYAC

Parental  SACRDRKDCNFFQWEDEKLSGARLAAREAHNRRCQPPLSRMQCVQRYLKFIELPLSQRKFCQRCQQLLLP
          SACRDRKDCNFFQWEDEKLSGAR.A..EAHN.RCQPPLSRMQCVQRYLKFIELPL.QRKFCQRCQQLLLP
Retrocopy SACRDRKDCNFFQWEDEKLSGARCAGQEAHNQRCQPPLSRMQCVQRYLKFIELPLCQRKFCQRCQQLLLP

Parental  DDWEKHREHQVMGDISVTQLKRPSQLLSPLENKKTNAQYLFADRSCQFLIDLLSTLGFRRVLCVGTPRLH
          DD.EKH.E.QVMGDISVTQLKRPSQLLSPLENKKTNAQYLFADRSCQFLIDLLSTLGFRRVLCVGT.RLH
Retrocopy DD*EKHHEPQVMGDISVTQLKRPSQLLSPLENKKTNAQYLFADRSCQFLIDLLSTLGFRRVLCVGTLRLH

Parental  ELIRLKASGDKKPNIKSLLLDIDFRYSQFYMEDSFCHYNMFNHHFFDGEVALEVCRT-FLQEDKGEGVIM
          ELI.LKASGDKKPNIKSLLLDIDFRYSQFYMEDSFCH.NMFNHHFFDGE.A.EVCRT.FLQEDKGEGVIM
Retrocopy ELIWLKASGDKKPNIKSLLLDIDFRYSQFYMEDSFCHCNMFNHHFFDGEAAFEVCRT>FLQEDKGEGVIM

Parental  VTDPPFGGLVEPLAVTFKKLIAMWKKGQSQDNNHKELP
          VTDPPFGG.VEPLAV.FKKLIAMWKKGQSQDNNHKELP
Retrocopy VTDPPFGGFVEPLAVIFKKLIAMWKKGQSQDNNHKELP

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_1360 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 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000018120	1 retrocopy	retro_amel_1902,
Myotis lucifugus	ENSMLUG00000004225	1 retrocopy	retro_mluc_1360 ,
Mustela putorius furo	ENSMPUG00000016727	1 retrocopy	retro_mputfur_1568,