RetrogeneDB ID: retro_mluc_2227

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL430125:503008..503778(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: FAM54A
• Ensembl ID: ENSMLUG00000002331
• Aliases: None
• Description: None

Sequence

>retro_mluc_2227
AGAAATGGTATATGGAAAAATGAGGATAAGGAGACTGAAGTTTTCCATCCTTTGCAATTAGTTTGAGATCCACTGTTACC
TGCTCTAAGACATAACAAAGCAATGGAAAATTATCAGTCTGTAAATGAAGCTGCAATTAAAAAAGTACCTGCCCTTGAAG
ACGAACTAACTATTCTTTGCTCTCAGATTGCTGAAGTTTTGCAAATGCAGGAACTGAAAAACAGTACTAATTCTGGCTCC
TTTGACTTGACTTATGGGCCTGCTGGTTTGGGACAAGTGCCATCATTAGAAACTGCTCAACTGAGTGTCAAACCAGATCC
ATTTTCAAGTTCAGTGCTTCCTGCTCCTCCTCCTCCTCCTCCTACACAGCCCCCTCAGTTTTCTTCGCTGCAGCCTCCAT
GTTCTCTTGTGCAGCCAGAATATAATCGTATTTGTGACTCAGATAATTCAGCAACTGAAATGAAAAAACAACAACCAGGT
GCCAGTAAGACCAATTATAGTCGTCATTCAAAAAACCAGAAAAACAAAGATGTTCCAAACATGTTGGATGTTCTAAAGGA
TATGAATAAGATTAAACTTCCTGCTATTGAACAGTCGCCTGGAAGTAGACCCATTCATAAGAGGAAAAGACATAGTTCAC
AGTGGGATCCTGTGTATTTAATATCCCAGGTACTTAATAGAAATTTGAGTTCCAAGAAGATGATTCCTTTGAGAAAGAAA
ATAGGGCTTGAGAGTCTTCTCCATTTTCTAGTCCAGAAACTTCAAGGATA

Alignment

ORF - retro_mluc_2227 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 78.68 %
• Parental protein coverage: 72.6 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  RNGIWKNEEEETEVFHPLQLVRDPPSPGLRHNKPMKNSQPVNEAAIKKIAALEDELTFLRSQIAAIVQMQ
          RNGIWKNE..ETEVFHPLQLV.DP..P.LRHNK.M.N.Q.VNEAAIKK..ALEDELT.L.SQIA...QMQ
Retrocopy RNGIWKNEDKETEVFHPLQLV*DPLLPALRHNKAMENYQSVNEAAIKKVPALEDELTILCSQIAEVLQMQ

Parental  ELKNSTNCGSFDSTDGPSGLGQVPSSGTAQRSVKPDPFSSSVLPAPPPPPSPLPPQFSSLQPPCSPVQPE
          ELKNSTN.GSFD.T.GP.GLGQVPS..TAQ.SVKPDPFSSSV...........PPQFSSLQPPCS.VQPE
Retrocopy ELKNSTNSGSFDLTYGPAGLGQVPSLETAQLSVKPDPFSSSVXXXXXXXXXTQPPQFSSLQPPCSLVQPE

Parental  YTHICDSDNTATEVKKQHPGASKTNYNRHSKNQKNKDVPNMLDVLKDMNKIKLRAIERSPGGRPIRKRKR
          Y..ICDSDN.ATE.KKQ.PGASKTNY.RHSKNQKNKDVPNMLDVLKDMNKIKL.AIE.SPG.RPI.KRKR
Retrocopy YNRICDSDNSATEMKKQQPGASKTNYSRHSKNQKNKDVPNMLDVLKDMNKIKLPAIEQSPGSRPIHKRKR

Parental  HSSQWDPVSLISQALKQ-KFAFQEDDSFEKENRSWESSPFSSPETSRL
          HSSQWDPV.LISQ.L...KF.FQEDDSFEKENR..ESSPFSSPETSR.
Retrocopy HSSQWDPVYLISQVLNR<KFEFQEDDSFEKENRA*ESSPFSSPETSRI

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_2227 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 6 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000000244	1 retrocopy	retro_cfam_1178,
Myotis lucifugus	ENSMLUG00000002331	1 retrocopy	retro_mluc_2227 ,
Myotis lucifugus	ENSMLUG00000010738	1 retrocopy	retro_mluc_338,
Monodelphis domestica	ENSMODG00000017453	1 retrocopy	retro_mdom_1813,
Nomascus leucogenys	ENSNLEG00000014793	1 retrocopy	retro_nleu_1513,
Pan troglodytes	ENSPTRG00000018634	1 retrocopy	retro_ptro_1491,