RetrogeneDB ID: retro_mluc_1428

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL429836:4708864..4709651(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMLUG00000023507
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: PSMB5
• Ensembl ID: ENSMLUG00000014281
• Aliases: None
• Description: Proteasome subunit beta type [Source:UniProtKB/TrEMBL;Acc:G1PPN9]

Sequence

>retro_mluc_1428
ATGGTGCTGGCCAGTGTGTTGGAGAGCTCGGTACCAATGAACTGGCCCGGGTTTTCGGACTCGGGGTTCGTGCAGATCTG
TTGGACCTGGGTCCAGGTAGTCCCAGCGATGGGCTGAGCCTTGCTGCGCCCAGCTGGGGTGTCCCAGAGGAGCCGAGGAT
CGAAATACTTCATGGAACCACCACCCTGGCCTTCAAGTTTCAACATGGAGTCATTGTTGCAGCAGACTCCCGGGCCACAG
CGGGCGCCTACATTGCCTCCCAGACGGTAAAGAAGGTGATAGAGATCAACCCCTACCTGCTGGGCACCATGGAGGGGGTG
CGGCGGATTGCAGCTTCTGGGAGCGGCTATTGGCTCGGCAGTGTCGAATTTATGAGCTTCGAAACAAGGAAGGCATCTCA
GTAGCAGCTGCCTCCAAACTGCTCGCCAACATGGTTTATCAGTATAAAGGCATGGGGCTGTCCATGGGCACCATGATCTG
TGGCTGGGACAAGAGAGGCCCTGTCCTCTACTACATGGACAGTGAAGGAAACTGGATCTCAGGGGTCACCTTCTCTGTAG
GTTCTGGCTCTGTGTATGCATATGGGGTCATGGATCGGGGTTACTCCTATGACCTAGAGGTGGAAGAGGCCTATGATCTG
GCCCGTCGAGCCATCTACCAAGCCACCTACAGAGCTGCCTACTCAGGAGGTTCGGTCAACCTCTACCATGTCCCTGAGGA
TGGCTGGATCCGAGTCTCCAGGGATAACGTAGCTGATTTACATGACAAGGACACTGGATCTACCCCC

Alignment

ORF - retro_mluc_1428 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 93.58 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MALASVLESSVPVNRHGF-FGLGGRADLLDLGPGSPSDGLSLAAPSWGVPEEPRIEILHGTTTLAFKFQH
          M.LASVLESSVP.N..GF.FGLG.RADLLDLGPGSPSDGLSLAAPSWGVPEEPRIEILHGTTTLAFKFQH
Retrocopy MVLASVLESSVPMNWPGF<FGLGVRADLLDLGPGSPSDGLSLAAPSWGVPEEPRIEILHGTTTLAFKFQH

Parental  GVIVAADSRATAGAYIASQTVKKVIEINPYLLGTM-AGGAADCSFWERLLARQCRIYELRNKERISVAAA
          GVIVAADSRATAGAYIASQTVKKVIEINPYLLGTM..GGAADCSFWERLLARQCRIYELRNKE.ISVAAA
Retrocopy GVIVAADSRATAGAYIASQTVKKVIEINPYLLGTM<GGGAADCSFWERLLARQCRIYELRNKEGISVAAA

Parental  SKLLANMVYQYKGMGLSMGTMICGWDKRGPGLYYVDSEGNRISGVTFSVGSGSVYAYGVMDRGYSYDLEV
          SKLLANMVYQYKGMGLSMGTMICGWDKRGP.LYY.DSEGN.ISGVTFSVGSGSVYAYGVMDRGYSYDLEV
Retrocopy SKLLANMVYQYKGMGLSMGTMICGWDKRGPVLYYMDSEGNWISGVTFSVGSGSVYAYGVMDRGYSYDLEV

Parental  EEAYDLARRAIYQATYRDAYSGGSVNLYHVREDGWIRVSSDNVADLHDKYTASTP
          EEAYDLARRAIYQATYR.AYSGGSVNLYHV.EDGWIRVS.DNVADLHDK.T.STP
Retrocopy EEAYDLARRAIYQATYRAAYSGGSVNLYHVPEDGWIRVSRDNVADLHDKDTGSTP

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_1428 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 13 parental genes, and 19 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000008299	4 retrocopies	retro_cjac_1983, retro_cjac_35, retro_cjac_3888, retro_cjac_4076,
Homo sapiens	ENSG00000100804	2 retrocopies	retro_hsap_1634, retro_hsap_95,
Gorilla gorilla	ENSGGOG00000026856	2 retrocopies	retro_ggor_1232, retro_ggor_156,
Latimeria chalumnae	ENSLACG00000015194	1 retrocopy	retro_lcha_3,
Macropus eugenii	ENSMEUG00000003572	1 retrocopy	retro_meug_28,
Myotis lucifugus	ENSMLUG00000013876	1 retrocopy	retro_mluc_285,
Myotis lucifugus	ENSMLUG00000014281	1 retrocopy	retro_mluc_1428 ,
Macaca mulatta	ENSMMUG00000006007	1 retrocopy	retro_mmul_1558,
Mus musculus	ENSMUSG00000022193	1 retrocopy	retro_mmus_2887,
Nomascus leucogenys	ENSNLEG00000014891	2 retrocopies	retro_nleu_1063, retro_nleu_2936,
Oryctolagus cuniculus	ENSOCUG00000013109	1 retrocopy	retro_ocun_176,
Pongo abelii	ENSPPYG00000005654	1 retrocopy	retro_pabe_171,
Sus scrofa	ENSSSCG00000002036	1 retrocopy	retro_sscr_616,