RetrogeneDB ID: retro_mluc_542

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL429767:34890329..34890712(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: VAPA
• Ensembl ID: ENSMLUG00000008965
• Aliases: None
• Description: None

Sequence

>retro_mluc_542
ATGGTGTCCGCCTCTGTGGCCATGGCGAAGCATGAGCAGATCCTGGTCCTCGCCCCTTCCACAGACCTCAAATTCAAAGG
CTCCTTCACAAATGTAGTCACTACAAATCTTAAGTTGTGAAATCCATCATATAGAAAAGTATGCTTCAAAGTGAAGACTA
CAGCACCTTTTGGGTACTGCATGAGGCCCAACAGTGGGATTATTGACCCAGGGTTGACTGTGACTGCTTCAGTAATGCTA
CAGCCTTTTGACTATGATCCCAATGGAAAGAATAAACACAGGTTTATGGTGCAGACAATTTTTGCTCCACCAAACATTTC
AGATATGGAAGCTGTGTGGAAAGAGGCAAACCTGATGAGTTACTGGATTCTAAATTGAGATGT

Alignment

ORF - retro_mluc_542 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.05 %
• Parental protein coverage: 51.41 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MASASGAMAKHEQILVLDPPTDLKFKGPFTDVVTTNLKLRNPSDRKVCFKVKTTAPRRYCVRPNSGIIDP
          M.SAS.AMAKHEQILVL.P.TDLKFKG.FT.VVTTNLKL.NPS.RKVCFKVKTTAP..YC.RPNSGIIDP
Retrocopy MVSASVAMAKHEQILVLAPSTDLKFKGSFTNVVTTNLKL*NPSYRKVCFKVKTTAPFGYCMRPNSGIIDP

Parental  GSTVTVSVMLQPFDYDPNEKSKHKFMVQTIFAPPNISDMEAVWKEA-KPDELMDSKLRC
          G.TVT.SVMLQPFDYDPN.K.KH.FMVQTIFAPPNISDMEAVWKEA.KPDEL.DSKLRC
Retrocopy GLTVTASVMLQPFDYDPNGKNKHRFMVQTIFAPPNISDMEAVWKEA<KPDELLDSKLRC

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_542 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 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Cavia porcellus	ENSCPOG00000006042	2 retrocopies	retro_cpor_783, retro_cpor_931,
Myotis lucifugus	ENSMLUG00000008965	1 retrocopy	retro_mluc_542 ,
Monodelphis domestica	ENSMODG00000021442	1 retrocopy	retro_mdom_57,
Mus musculus	ENSMUSG00000024091	1 retrocopy	retro_mmus_1774,
Pongo abelii	ENSPPYG00000009006	1 retrocopy	retro_pabe_1323,
Rattus norvegicus	ENSRNOG00000014765	1 retrocopy	retro_rnor_266,