RetrogeneDB ID: retro_mluc_280

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL430422:142818..144816(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMLUG00000022739
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: TBC1D25
• Ensembl ID: ENSMLUG00000003989
• Aliases: None
• Description: None

Sequence

>retro_mluc_280
ATGGCTTCGGCCTGTGGGTCCTCAGCCTTGGCCGGCTCCGGAGCATCCCCGCCTGGCCCGGGAGTCCAAGCGGCCGGGGC
CAAGGAGGAGGAGGAGGAGGAGGAGGAGGAGGAGCAGGAGGTGGTACGAGTCCGAGTCCAGAAATGTGCGGGCTTCTTGC
CCCCCGAGCTCCGCTCTTTCGCGGTGGACCCCCAGATCACCCCCCTCGACGTGCTGCAGCACATCCTCGCCCGAGCGTTT
GACCTGAGCGGGAAGCCCTTTGACCTCCGCTACCGGGGCCGGGATGGGCTGGGGCAGGAGGTCTACCTCCCGCTCCGGTC
GGACGGGGACCTCAGCACGGCCTTCGCCGTGGCCTCCAAACCTTTCCTGCAGCTGCGGCTGGACCTGGGGCCGGCGGAGG
ACCGCCCGCTGCTGGAAGACTGGGACCTCATCGGCCCCCAGGAGGCCGCCGGCCCCGACGTGCCGCCGCCGCCGGAGCAA
CGGGCGCCCCTGGCGGCGGCCGCCCTGCCCTTCGCGCAGGGCCTCCTCGCCCAGGTGGGCCGCACCTGGTCCAGGGTCCA
GCAGGTGCTGAGCTGGTCCCCCGGGAAGGAGGTCAAGCCCCTCTGGCCCCCGCTGAGCGAGGCCGAGTTCCACACGTACC
TGCACCCCGACGGCCGGCTCTCGCGCCCGGAGCAGCTGCGCCTGCGCGTCTACCAGGGCGGAGTGGCGCCCTCCCTGCGC
GGGGAGGTGTGGCAGCACCTGCTGAACGTGCTGCCGGCCCGCCTGACCGCCCGCCAGCGGACCGCCTACGTGAGCAGCAA
GAGCCGCGAGTACGAGCGGCTCAAGAGCGAGTGGGCGCAGCGCGCCGGCCCCGAGGACCTGGAGCGCATCCGCGGCGCCG
TCCTCCGGGACGTGCGGCGCACCGACCGGGCGCACCCCTACTACGCGGGGCCGGAGGACGGCCCGCACCTGCGAGCCCTG
CACGACCTGCTCACCACCTACGCCGTCACCCACCCGCAGGTGTCCTACCGCCAGGGCATGAGCGACCTGGCCTCGCCCCT
CCTGGCGGCGCTGGACCACGAAGGCCAGGCCTTCCTCTGCTTCTGCGGCGTCATGCGGCGCCTGGCCCCCAACTTCCACC
CCGACGGCTGGGCCATGGCCGTCAAGTTCGCCCACCTCCAGCTGCTGCTGCGGCACGTGGACCCCGACTTCTACCGGTAC
CTGCGGGAGGCGGGGGCCCACCACCTCCTCTTCTGCTACCGCTGGCTGCTGCTCGAGCTCAAGCGGGAGTTCGCCTTTGA
GGATGCCCTGCGCATGCTCGAGGTCACCTGGAGCTCGCTGCCTCCCTATCCTCCCGAACGGGAGGTCGAGCTCGTGGGGA
CCCCCTGCCCCGGGGCCGACACTGGCTCCGGGAGCTGCGGGGAGCAGCCCCTGCGACAGGGGCACAGGCCCAGGCCTGCT
GGCGGGAGAGGCGGTGCTTTTGAAGAGGCCGTTGACCCCTTGGCCCTGACCAGCCAGGAGCCTGGTGGTGGGGGGCAGCT
CCCGGGACCAGCCAGTCTGGGTGACCTCCAGCAACTCAGGGACAACAGCCGCCCCAGGAGGGACCCTCTCGCCCAGCTTT
TCCATCCCACTGTCCTCATCAGCTCCAAGTCCCTCTCCAAGCCCTTGCTGAACTCCGCAGACGCACCCCTCTCCTCTTCC
CTGCCTGGTTCCCCATCCTCCTCGACTCTGCTGTCCTCCTGGGAGGCCTCTCCTGCTGCAGGATCCCTTTTGATGCCAGA
GGTGGGCTCCCCACAAGACCCTGGGAAGTCCCTGCCACCACCCCAGGAGCTTGGCCAGGGGAACCCGTTCATGCTGTTTC
TCTGCCTCGCCATCCTGTTAGAGCACCGGGGTCAAATCATGAGGAACGGGCTGGATTACCACGAGGTGGCCATGCACTTT
GACCGCCTTGTGGGGAAACACCCGCTGGGGCGTGTCCTACACCGGGCCAAGGCCCTCTTTGCTGATTACCTGCAGTCC

Alignment

ORF - retro_mluc_280 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 70.16 %
• Parental protein coverage: 84.94 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  GGMATATGSLDLAGSGAPPPGGGVQAAAAEEEEREVVRVRVKKCESFLPPEFRSFAVDPQITSLDVLQHI
          G..A.A.......G.G....G........EEEE.EVVRVRV.KC..FLPPE.RSFAVDPQIT.LDVLQHI
Retrocopy GSSALAGSGASPPGPGVQAAGAKEEEEEEEEEEQEVVRVRVQKCAGFLPPELRSFAVDPQITPLDVLQHI

Parental  LIRAFDLNGKKNFGISYLGRDRLGQEAYLSLLSDWDLSTAFATASKPYLQLRVDIRPTEDSPLLEDWDII
          L.RAFDL.GK..F...Y.GRD.LGQE.YL.L.SD.DLSTAFA.ASKP.LQLR.D..P.ED.PLLEDWD.I
Retrocopy LARAFDLSGKP-FDLRYRGRDGLGQEVYLPLRSDGDLSTAFAVASKPFLQLRLDLGPAEDRPLLEDWDLI

Parental  SPKDVIGSDVLLA-EKRSSLTAAALPFTQSILSQVGRTLSKVQQVLSWSYGEDVKPFKPPLSDAEFHTYL
          .P....G.DV....E.R..L.AAALPF.Q..L.QVGRT.S.VQQVLSWS.G..VKP..PPLS.AEFHTYL
Retrocopy GPQEAAGPDVPPPPEQRAPLAAAALPFAQGLLAQVGRTWSRVQQVLSWSPGKEVKPLWPPLSEAEFHTYL

Parental  NHEGQLSRPEELRLRIYHGGVEPSLRKVVWRYLLNVYPDGLTGRERMDYMKRKSREYEQLKSEWAQRASP
          ...G.LSRPE.LRLR.Y.GGV.PSLR..VW..LLNV.P..LT.R.R..Y...KSREYE.LKSEWAQRA.P
Retrocopy HPDGRLSRPEQLRLRVYQGGVAPSLRGEVWQHLLNVLPARLTARQRTAYVSSKSREYERLKSEWAQRAGP

Parental  EDLEFIRSTVLKDVLRTDRAHPYYAGPEDGPHLRALHDLLTTYAVTHPQVSYCQGMSDLASPILAVMDHE
          EDLE.IR..VL.DV.RTDRAHPYYAGPEDGPHLRALHDLLTTYAVTHPQVSY.QGMSDLASP.LA..DHE
Retrocopy EDLERIRGAVLRDVRRTDRAHPYYAGPEDGPHLRALHDLLTTYAVTHPQVSYRQGMSDLASPLLAALDHE

Parental  GHAFVCFCGIMKRLAGNFHPDGRAMATKFAHLKLLLRHADPDFYQYLQEAGADDLFFCYRWLLLELKREF
          G.AF.CFCG.M.RLA.NFHPDG.AMA.KFAHL.LLLRH.DPDFY.YL.EAGA..L.FCYRWLLLELKREF
Retrocopy GQAFLCFCGVMRRLAPNFHPDGWAMAVKFAHLQLLLRHVDPDFYRYLREAGAHHLLFCYRWLLLELKREF

Parental  AFDDALRMLEVTWSSLPPDPPEHEVELIGPPSQVADTGFSSHRGRPVRQRHMLRPAGGGGGAFEDAVDHL
          AF.DALRMLEVTWSSLPP.PPE.EVEL.G.P...ADTG..S....P.RQ.H..RPAGG.GGAFE.AVD.L
Retrocopy AFEDALRMLEVTWSSLPPYPPEREVELVGTPCPGADTGSGSCGEQPLRQGHRPRPAGGRGGAFEEAVDPL

Parental  AMTSQGPSGGGRLLRQASLDDFQQLRDNTSPRRDPRVQLPHPIALISSKSLSEPLLNSSDPLLSSSSHPD
          A.TSQ.P.GGG.L...ASL.D.QQLRDN..PRRDP..QL.HP..LISSKSLS.PLLNS.D..LSSS..P.
Retrocopy ALTSQEPGGGGQLPGPASLGDLQQLRDNSRPRRDPLAQLFHPTVLISSKSLSKPLLNSADAPLSSSL-PG

Parental  SPSSSSPPSSQEASPAGDVAAGSPLIPEVGSPQDPGKSLPPPHPLGLPPP
          SPSSS...SS.EASPA....AGS.L.PEVGSPQDPGKSLPPP..LG...P
Retrocopy SPSSSTLLSSWEASPA----AGSLLMPEVGSPQDPGKSLPPPQELGQGNP

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_280 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 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000002300	1 retrocopy	retro_cjac_1970,
Myotis lucifugus	ENSMLUG00000003989	1 retrocopy	retro_mluc_280 ,