RetrogeneDB ID: retro_mluc_509

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL429767:6875201..6876147(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: PABPC1L
• Ensembl ID: ENSMLUG00000006324
• Aliases: None
• Description: None

Sequence

>retro_mluc_509
TGGTCCCAGCGAGACCCAGGACTTGGAAAGTCGGGTGTGGGCAGCATCTTCATGGAGAACCCGGAGGAGTCCCTTGACAA
CAAGGATGACACCTTCTCCACCGCTGGGAACATCCTGTCTTGCAAGGTGGTATGTGAGGATCGCGGCTCCCGAGGCTTTG
ACTTTGTCCATGTGGAGACCCGTGAGGCTGCGCAGCAGGCCATCAGCATTTTGAATGGGATGTAGCTGAATGACCGCAAA
GTCCTCTTTAGCCCCTGCAAGCCTTGACAAGAACGGGAGGCAGAGCTGGGGCTCGGGCCGTGGGGTTCACCAACATCTAT
CTGAAGAACCACAGATGGACATAGACGAGCAGGGCCTGGAGGAGTCTTCTCCCAGTTTGGGAAGATGCTGAGTGTGAAGG
CGAGGAGCAACGATAGCGGCCACTCCCAAGGCTTTGGCTTTGTCACCTTTGAGAAGCAGAAGGCTGTACAGAGCGGGAAG
GAGGTTGGCGGGCAGCGGCTCTATGTGGGCCATGCCCAGGAGCGGCAGAATGAGCTCAAGCGAAGGTTCCAGCAGATGGA
GCAGGACCGGCTGAACCATTAGCAGGGCGTGAACTGGTATGCGAAGAACCTGGAGGACTACTTGGTTCTGAGAGACAGGA
AAGAGTTTCCTCCCTACGGAGCGATCACCAGTGCCAGGCTGATGACAGAGGGTGGCCAGCCCAGGGCTTGGCTTTGTGTG
TTTTTCCTCTCCAGAAGAGGCAACGAAGGCTGTGACAGAGATGAATGGGTACATCCTGGGCACCACGCCGCTGGACGTGG
CGCTGGCTCAGCGCAAAGAGGAATGGAAGGCTATCTTGACCAACCAGTTCATGCAGCAGCGCCACTCCAACGTGTGGGCC
CTGGATGGCCCCCTCTTGGACTCTTTCCAGCAGCCCGCCAGCTGCTTCCTGTCCACACTGCCCCAG

Alignment

ORF - retro_mluc_509 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 70.92 %
• Parental protein coverage: 52.37 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 5

Retrocopy - Parental Gene Alignment:

Parental  WSQRDPRLRKSGVGNIFIKNLEESIDNKALYDTFSTFGNILSCKVACDDHGSRGFGFVHFETREAAQQAI
          WSQRDP.L.KSGVG.IF..N.EES.DNK...DTFST.GNILSCKV.C.D.GSRGF.FVH.ETREAAQQAI
Retrocopy WSQRDPGLGKSGVGSIFMENPEESLDNKD--DTFSTAGNILSCKVVCEDRGSRGFDFVHVETREAAQQAI

Parental  STMNGMLLNNRKVFVSHFKSRQEREAELGV-RAMEFTNVYVKNL-QMDIDEQGLEE-LFSQFGKTLSVKV
          S..NGM.LN.RKV..S..K..QEREAELG..RA..FTN.Y.KN..QMDIDEQGLEE..FSQFGK.LSVK.
Retrocopy SILNGM*LNDRKVLFSPCKP*QEREAELGL<RAVGFTNIYLKNH<QMDIDEQGLEE<VFSQFGKMLSVKA

Parental  MRDDSGHSRGFGFVNFEKHEEAQKAVMDMNGKEVRGQLLYVGRAQKWAERQNELKRKFQQMKQMKQDRLN
          ...DSGHS.GFGFV.FEK....QKAV....GKEV.GQ.LYVG.AQ...ERQNELKR.FQ...QM.QDRLN
Retrocopy RSNDSGHSQGFGFVTFEK----QKAVQ--SGKEVGGQRLYVGHAQ---ERQNELKRRFQ---QMEQDRLN

Parental  HYQGVNLYVKNLDDSIDNERLRKEFSPYGVITSAKVMTEGGH-SKGFGFVCF-SSPEEATKAVTEMNGCI
          H.QGVN.Y.KNL.D.....R.RKEF.PYG.ITSA..MTEGG....G.....F.SSPEEATKAVTEMNG.I
Retrocopy H*QGVNWYAKNLEDYLVL-RDRKEFPPYGAITSARLMTEGGQ<AQGLALCVF<SSPEEATKAVTEMNGYI

Parental  LGTKPLYVALAQRKDERKAILTNQFMQQRLSNVWALGGPLLGSFQQPVSYFLPTVPQ
          LGT.PL.VALAQRK.E.KAILTNQFMQQR.SNVWAL.GPLL.SFQQP.S.FL.T.PQ
Retrocopy LGTTPLDVALAQRKEEWKAILTNQFMQQRHSNVWALDGPLLDSFQQPASCFLSTLPQ

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_509 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 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Macropus eugenii	ENSMEUG00000007905	6 retrocopies	retro_meug_1165, retro_meug_1229, retro_meug_1274, retro_meug_1343, retro_meug_419, retro_meug_987,
Microcebus murinus	ENSMICG00000000974	1 retrocopy	retro_mmur_42,
Myotis lucifugus	ENSMLUG00000000530	1 retrocopy	retro_mluc_1093,
Myotis lucifugus	ENSMLUG00000006324	1 retrocopy	retro_mluc_509 ,
Myotis lucifugus	ENSMLUG00000012068	2 retrocopies	retro_mluc_228, retro_mluc_397,
Myotis lucifugus	ENSMLUG00000012245	1 retrocopy	retro_mluc_579,