RetrogeneDB ID: retro_mluc_588

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL429768:36378862..36380230(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: RTF1
• Ensembl ID: ENSMLUG00000016112
• Aliases: None
• Description: None

Sequence

>retro_mluc_588
CTGACACAGATTCAAGAATCTCAGGTAACATCCCACAACAAGGAACGGTGTTCCAAACGGGATGAGAAACTAGATAAAAA
ATCTCAAGCCATGGAGGAGCTAAAAGCAGAGAGAGAAAAATGGAAGAACAGAACAGCTGAGCTCCTCGCCAAAAAACAGC
CATTAAAAACCAGTGAGGTATACTCTGACGATGAGGAGGAGGAAGAAGATGACAAATCCAGTGAAAAGACAGACCGCTCA
TCCCAAACACCATCCTCTGATGAAGAAGAAGAGATCCCTCCGAAATCACAACCCGTGTCCTTACCCGAAGAACTGAATCG
GATTCGATTATCACGGCATAAGCTGGAACGTTGGTGTCATATGCCCTTCTTTGCTAAAACTGTCACAGGATGTTTTGTAC
GGATTGGCATTGGAAACCACAACAGCAAACCAGTTTACCGGGTTGCTGAGATCAAGGGTGTTGTGGAAACCGCCAAGGTT
TACCAGCTTGGTGGCACCAGAACAAACAAAGGGCTACAGCTACAGCATGGCGATGCCCAACGGGTATTTCGCCTAGAGTT
TGTCTCAAACCAAGCATTCACTGAAAGCGAATTCATGAAGTGGAAAGAAGCGATGTTTTCTGCTGGCATGCAGTTGCCCA
CTCTAGATGAAATCAATAAGAAGGAATTATCTATTAAAGAAGCTCTTAATTATAAATTCAATGATCAAGACATTGAAGAG
ATTGTAAAAGAGAAAGAAAGGTTCAGGAAGGCTCCGCTTAACTATGCCAAGAAAAAGACTCAGCTGCTAAAGGAAAAGGC
CATGGCGGAGGACCTGGGGGATCAGGACAAGGCCAAACAAATCCAAGACCAGCTGAATGAGCTGGAGGAGCGGGCAGAGG
CCCTGCACCGCCAGTGGGTCAAGAACATATCTGCTATTAGTTACATCAACCAGCGGAACCGGAAATGGAATATTGTGAAG
TCTGAGAAGGCCCTTGTGGCTGAAAGTCTCAACATGAAAAACCAACAGATGGATCCCTTTACCAGACGGAAATGCGCACC
TATCATCGTTTCTAATTCCAGAAGCCCAGCTGTTCAAGCTGCCATCTTGGCCCAGCTGAATGCAAAGTATGGTTCTGGAG
TGTTACCGGATGCCCCAAAGGAAATGAGCAAGGGTCAGGGAAAGGATAAAGATTTGAATTCTAAGTCAGCCAGTGACCTC
TCAGAAGACTTGTTCAAAGTACATGATTTCGATGTGAAGATTGATTTACAAGTTCCCAGTTCAGAGTCAAAGGCTTTGGC
CATCACCTCCAAGGCTCCACCAGCCAAGGATGGGGCTCCAAGGAGATCTCTGAACTTGGAAGACTACAAAAAGCGACGGG
GGCTTATT

Alignment

ORF - retro_mluc_588 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 94.55 %
• Parental protein coverage: 64.38 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  LTQIQESQVTSHNKERRSKRDEKLDKKSQAMEELKAEREKRKNRTAELLAKKQPLKTSEVYSDDEEEEED
          LTQIQESQVTSHNKER.SKRDEKLDKKSQAMEELKAEREK.KNRTAELLAKKQPLKTSEVYSDDEEEEED
Retrocopy LTQIQESQVTSHNKERCSKRDEKLDKKSQAMEELKAEREKWKNRTAELLAKKQPLKTSEVYSDDEEEEED

Parental  DKSSEKTDRSSRTSSSDEEEEKEEIPPKSQPVSLPEELNRVRLSRHKLERWCHMPFFAKTVTGCFVRIGI
          DKSSEKTDRSS.T.SSDEE...EEIPPKSQPVSLPEELNR.RLSRHKLERWCHMPFFAKTVTGCFVRIGI
Retrocopy DKSSEKTDRSSQTPSSDEE---EEIPPKSQPVSLPEELNRIRLSRHKLERWCHMPFFAKTVTGCFVRIGI

Parental  GNHNSKPVYRVAEITGVVETAKVYQLGGTRTNKGLQLRHGSDQRVFRLEFVSNQEFTESEFMKWKEAMFS
          GNHNSKPVYRVAEI.GVVETAKVYQLGGTRTNKGLQL.HG..QRVFRLEFVSNQ.FTESEFMKWKEAMFS
Retrocopy GNHNSKPVYRVAEIKGVVETAKVYQLGGTRTNKGLQLQHGDAQRVFRLEFVSNQAFTESEFMKWKEAMFS

Parental  AGMQLPTLDEINKKELSIKEALNYKFNDQDIEEIVKEKERFRKAPPNYAMKKTQLLKEKAMAEDLGDQDK
          AGMQLPTLDEINKKELSIKEALNYKFNDQDIEEIVKEKERFRKAP.NYA.KKTQLLKEKAMAEDLGDQDK
Retrocopy AGMQLPTLDEINKKELSIKEALNYKFNDQDIEEIVKEKERFRKAPLNYAKKKTQLLKEKAMAEDLGDQDK

Parental  AKQIQDQLNELEERAEALDRQRTKNISAISYINQRNREWNIVESEKALVAESHNMKNQQMDPFTRRQCKP
          AKQIQDQLNELEERAEAL.RQ..KNISAISYINQRNR.WNIV.SEKALVAES.NMKNQQMDPFTRR.C.P
Retrocopy AKQIQDQLNELEERAEALHRQWVKNISAISYINQRNRKWNIVKSEKALVAESLNMKNQQMDPFTRRKCAP

Parental  TIVSNSRDPAVQAAILAQLNAKYGSGVLPDAPKEMSKGQGKDKDLNSKSASDLSEDLFKVHDFDVKIDLQ
          .IVSNSR.PAVQAAILAQLNAKYGSGVLPDAPKEMSKGQGKDKDLNSKSASDLSEDLFKVHDFDVKIDLQ
Retrocopy IIVSNSRSPAVQAAILAQLNAKYGSGVLPDAPKEMSKGQGKDKDLNSKSASDLSEDLFKVHDFDVKIDLQ

Parental  VPSSESKALAITSKAPPAKDGAPRRSLNLEDYKKRRGLI
          VPSSESKALAITSKAPPAKDGAPRRSLNLEDYKKRRGLI
Retrocopy VPSSESKALAITSKAPPAKDGAPRRSLNLEDYKKRRGLI

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_588 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 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Myotis lucifugus	ENSMLUG00000016112	1 retrocopy	retro_mluc_588 ,
Sarcophilus harrisii	ENSSHAG00000017073	2 retrocopies	retro_shar_22, retro_shar_345,