RetrogeneDB ID: retro_mluc_2403

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL430321:477845..478856(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MRPL39
• Ensembl ID: ENSMLUG00000015959
• Aliases: None
• Description: mitochondrial ribosomal protein L39 [Source:HGNC Symbol;Acc:14027]

Sequence

>retro_mluc_2403
ATGGCCATGGCTGTGGGAGTCTGGGGGTCGTGGCCCTGGAACGCCATCCCCAGTGGTGGCGCTGGCTGGAGATGTATAGC
AACATCCACAGCGTCTCAGCTGTCACCGACCGCACTGATAGAAATGCAGAACAATGTCTTCAATAAAGAGAAAGACAGGC
AGTCATCACTAACTCCCCAGACCGAGAAGATCGAGGTTAAACTCGTTGGGAAAACGGACCCTGGCACCACGTTTGTGATG
AATAAAAACGTGTCGACGCCCTGCAGTTGTGCCATGCATTTAAGTGAGTGGTACTGCAAGAAGTCCATTCTGGCTCTTGT
GGATGGACAGCCGTGGGACAAGTATAAGCCTTTGACCAAACCCTGTGAAATTCAGTTCCTTACTTTCAAAGATCCTGATC
CAGGAGAAGTTAATAAGGCTTACTGGTGGTCTTGTGCCCTGATGATGGGCTGTGTGATAGAGTGGTCATTCAAAGACGAA
TACTTGGTCAGTTTGGTCAGAGCTCCAGAAGTGCCTGTGATCGCTGGAGGCTTCTGCTATGATGTAGTTTTGGATAAGAG
GCTTGATGAGTGAATGCCAACAAAAGAGAACCTATGTTCTTTCACAAAAGATGCTGATACTTTAACTTATAAAAACCTCC
CATTTGAAACTCTGGAAGTTGATGCAAAAGTGGCATTAGAAATATTTCAACACAACAGGTATAAAGTAGATCTCATAGAA
GAGAAAGCATCTCAGAATCCTGAGAGAATAGTCAAGCTGCACAGATGTGGTGACTTCATTGATGTGACTGAAGGCCCTCT
TATTCCAAGAACAAGTATTTGTTCCCAGTTTGAAGTGTCAGCGGTTCACAATCTGCAGGCCACCGGGTCTCATCTTATAC
GAAGATTACAGGGTCTCTCTTTACCTGTTCACTTAAGAGCACATTTTACGATATGGACTAAGCTATTGGAAAGGTCTCGG
AAATTGGTAACCGAAGATCAAACTAAACCTGCAGATGAAAGTGCATCTACC

Alignment

ORF - retro_mluc_2403 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 87.83 %
• Parental protein coverage: 99.7 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MAVAVGFCGSRLWRAVPGGSSGWRRIATSTASQLSPAALIEMQNDVFNREKGRQSSLTPRVEKIEVKLVG
          MA.AVG..GS..W.A.P.G..GWR.IATSTASQLSP.ALIEMQN.VFN.EK.RQSSLTP..EKIEVKLVG
Retrocopy MAMAVGVWGSWPWNAIPSGGAGWRCIATSTASQLSPTALIEMQNNVFNKEKDRQSSLTPQTEKIEVKLVG

Parental  RTDPGTTFVMNKNVSTPYSCAMHLSEWYCKKSILALVDGQPWDMYKPLTKSCEIQFLTFKDRDPGEVNKA
          .TDPGTTFVMNKNVSTP.SCAMHLSEWYCKKSILALVDGQPWD.YKPLTK.CEIQFLTFKD.DPGEVNKA
Retrocopy KTDPGTTFVMNKNVSTPCSCAMHLSEWYCKKSILALVDGQPWDKYKPLTKPCEIQFLTFKDPDPGEVNKA

Parental  YWRSCAMMMGCVIERAFKDEYLVSLVRAPEVPVIAGAFCYDVVLDKRLDEWMPTKENLRSFTKDANTLIY
          YW.SCA.MMGCVIE..FKDEYLVSLVRAPEVPVIAG.FCYDVVLDKRLDE.MPTKENL.SFTKDA.TL.Y
Retrocopy YWWSCALMMGCVIEWSFKDEYLVSLVRAPEVPVIAGGFCYDVVLDKRLDE*MPTKENLCSFTKDADTLTY

Parental  KDLPFETLEVDAKVALEIFQYNRYKVDLIEEKASQNPERIVKLHRFGDFIDVTEGPLIPRTSICSQFEVS
          K.LPFETLEVDAKVALEIFQ.NRYKVDLIEEKASQNPERIVKLHR.GDFIDVTEGPLIPRTSICSQFEVS
Retrocopy KNLPFETLEVDAKVALEIFQHNRYKVDLIEEKASQNPERIVKLHRCGDFIDVTEGPLIPRTSICSQFEVS

Parental  AVHNLQATGSSLVRRFQGLSLPVHLRAHFTIWTKLLERSRKLVTEDQTKPADNKNFT
          AVHNLQATGS.L.RR.QGLSLPVHLRAHFTIWTKLLERSRKLVTEDQTKPAD....T
Retrocopy AVHNLQATGSHLIRRLQGLSLPVHLRAHFTIWTKLLERSRKLVTEDQTKPADESAST

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_2403 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 4 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Felis catus	ENSFCAG00000022879	2 retrocopies	retro_fcat_1817, retro_fcat_300,
Macropus eugenii	ENSMEUG00000002198	1 retrocopy	retro_meug_682,
Myotis lucifugus	ENSMLUG00000015959	1 retrocopy	retro_mluc_2403 ,
Tupaia belangeri	ENSTBEG00000006067	2 retrocopies	retro_tbel_2146, retro_tbel_4725,