RetrogeneDB ID: retro_mluc_1002

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL429787:6689922..6690294(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: PSMA5
• Ensembl ID: ENSMLUG00000008497
• Aliases: None
• Description: Proteasome subunit alpha type [Source:UniProtKB/TrEMBL;Acc:G1PBK8]

Sequence

>retro_mluc_1002
GGGGTGTGTCTAGCTGCGGAGAAGAGAATTATCTCCCCACTCATGGAGCCAAGCAGCATTGAGAAAATTGTAGAGATTGA
TACTCACATAGATTGTGCCATGAGTGGGCTAATTGCTGATGCTAAGACTTTAATTGATAAAGCCAGAATGGAGACACAGA
ACCATTTTGTCACCTATAAGGACACAATGATGGTGGAGAGTGTGACCCAGGCTGTGTCCAATCTGGCTCTACAGTCTGGA
AAGGAAGATGCAAATCCAGGTGCCATGGTCCTTCCCTTTGGAGTAGCACTGTTATTTTGAGGAGCTGATGGGAAAAGTCC
TCAGCTGTTTCACATGGACCCATCTGGTACCTTTGTACAGTGTGATGCTCAA

Alignment

ORF - retro_mluc_1002 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 81.25 %
• Parental protein coverage: 51.82 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  GVCLAVEKRITSPLMEPSSIEKIVEIDAHIGCAMSGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQ
          GVCLA.EKRI.SPLMEPSSIEKIVEID.HI.CAMSGLIADAKTLIDKAR.ETQNH..TY..TM.VESVTQ
Retrocopy GVCLAAEKRIISPLMEPSSIEKIVEIDTHIDCAMSGLIADAKTLIDKARMETQNHFVTYKDTMMVESVTQ

Parental  SVTQAVSNLALQFGEEDADPGAMSRPFGVALLFGGVDEKGPQLFHMDPSGTFVQCDAR
          ....AVSNLALQ.G.EDA.PGAM..PFGVALLF.G.D.K.PQLFHMDPSGTFVQCDA.
Retrocopy ----AVSNLALQSGKEDANPGAMVLPFGVALLF*GADGKSPQLFHMDPSGTFVQCDAQ

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_1002 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 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Myotis lucifugus	ENSMLUG00000008497	2 retrocopies	retro_mluc_1002 , retro_mluc_926,
Mustela putorius furo	ENSMPUG00000003189	1 retrocopy	retro_mputfur_1295,
Mus musculus	ENSMUSG00000068749	1 retrocopy	retro_mmus_52,
Otolemur garnettii	ENSOGAG00000013560	1 retrocopy	retro_ogar_3137,
Pteropus vampyrus	ENSPVAG00000008908	1 retrocopy	retro_pvam_222,
Sus scrofa	ENSSSCG00000006830	2 retrocopies	retro_sscr_1156, retro_sscr_1194,