RetrogeneDB ID: retro_mluc_2305

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL430188:554909..555775(-)
• Located in intron of: ENSMLUG00000013069

Retrocopy information

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

Parental gene information

• Parental gene symbol: UBAP1
• Ensembl ID: ENSMLUG00000013063
• Aliases: None
• Description: None

Sequence

>retro_mluc_2305
GCATCCCTGGAGCAGGCAACACTATTTTCAAGCCTCTTCATAAACCCAATGGCTTTATAACCTTACCACAGTTGGGCAAC
TGTGAAAAGATGTCGCTGTCTTCCAAAGTGTCCCTCCCCCCCATTCCTGCAATAAGCAATATCAAATCCCTGTCCTTCCC
CAAACTTAACTCTGATGACAGCAATCAGAAGACAGCCAAGCTAGCAAGCACTTTCCTAACACATTCTGCCTCCGAAATGG
CACTTTCCAGAATTCCCTAAACCTTCCACCCAAAGCAGTGCAGTGAGTTCAATGGGCATCAAAATCTTGGGCTTTCAGCT
TTGAACTTAGACAGTGGCACAGAGGTGCCAAACCTGACCCTTTCTGGTATGATTTCCCAGATGCCTTCCCTCTCTGTCTT
GTCTGTGTGTACAGAAGAATCGTCACCTCCAAATATAAGTCCCATGGTCACACCTCCTAATCTCTCCATGTCACAAGTGC
CCAACACTCCCAGCTGTCCCCAGTCTTATTCTGACCTGCAGACGCTGTCCCCTGTGAGCAGTAGTGTGTGGAGACAGTGG
TCAACATGGGCTACTCATATGAGTATGTCCTGAGAGCCATGAAGAGGAAAGGAGAGAAATCCGAGCAGATTCTTTACTAT
CTTTGTATATAGACAGCTCTGTGGGAAGGGCTTCGACCCTCTTTTAGTGGAAGAGGCTCTGGAAATACACCAGTATTCAG
AGGACAATATGATGGAGTTCCTTCAATTAATTAGCAAATTTAAGGAAATGGTCTTTGAACTGAAAGACATTAAGGAAGTT
ATGCTTTTACATAACAATGACCAGGGTAATACTTTGGAAGACTGCATGGCTCAGGCTGAAGCCAGC

Alignment

ORF - retro_mluc_2305 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 79.8 %
• Parental protein coverage: 51.32 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 6

Retrocopy - Parental Gene Alignment:

Parental  ASLERATLD-FKPLHKPNGFITLPQLGNCEKMSLSSKVSLPPIPAVSNIKSLSFPKLDSDDSNQKTAKLA
          ASLE.ATL..FKPLHKPNGFITLPQLGNCEKMSLSSKVSLPPIPA.SNIKSLSFPKL.SDDSNQKTAKLA
Retrocopy ASLEQATLF<FKPLHKPNGFITLPQLGNCEKMSLSSKVSLPPIPAISNIKSLSFPKLNSDDSNQKTAKLA

Parental  STF-HSTSCLRNGTFQNSL-KPSTQSSA-SELSGHQSLGLSTLNLDSGTEVPALTPSDMISQTPSLSVLS
          STF...T.CLRNGTFQNSL.KPSTQSSA.SE..GHQ.LGLS.LNLDSGTEVP.LT.S.MISQ.PSLSVLS
Retrocopy STF<PNTFCLRNGTFQNSL<KPSTQSSA<SEFNGHQNLGLSALNLDSGTEVPNLTLSGMISQMPSLSVLS

Parental  VCTEESSPPNTGSTATPPKFSMSQVPNTPSCPQAYSELQTLS-PSERQCVETVVNMGYSYECVLRAMKKK
          VCTEESSPPN.....TPP..SMSQVPNTPSCPQ.YS.LQTLS.P.E..CVETVVNMGYSYE.VLRAMK.K
Retrocopy VCTEESSPPNISPMVTPPNLSMSQVPNTPSCPQSYSDLQTLS<PCEQ*CVETVVNMGYSYEYVLRAMKRK

Parental  GENIEQILDYLFVHGQLCEKGFDP-LLVEEALEMHQCSEEKMLEFLQLMSKFKEMGFELKDIKEVLLLHN
          GE..EQIL.YL.....L.E.G..P.LLVEEALE.HQ.SE..M.EFLQL.SKFKEM.FELKDIKEV.LLHN
Retrocopy GEKSEQILYYLCI*TALWE-GLRP>LLVEEALEIHQYSEDNMMEFLQLISKFKEMVFELKDIKEVMLLHN

Parental  NDQDNALEDLMARAGAS
          NDQ.N.LED.MA.A.AS
Retrocopy NDQGNTLEDCMAQAEAS

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_2305 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 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Erinaceus europaeus	ENSEEUG00000011672	1 retrocopy	retro_eeur_466,
Myotis lucifugus	ENSMLUG00000013063	1 retrocopy	retro_mluc_2305 ,
Otolemur garnettii	ENSOGAG00000015802	1 retrocopy	retro_ogar_557,
Ochotona princeps	ENSOPRG00000009100	3 retrocopies	retro_opri_355, retro_opri_477, retro_opri_680,
Ictidomys tridecemlineatus	ENSSTOG00000028294	1 retrocopy	retro_itri_1318,
Tarsius syrichta	ENSTSYG00000013035	2 retrocopies	retro_tsyr_1908, retro_tsyr_846,