RetrogeneDB ID: retro_mluc_697

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL429771:10861257..10862326(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMLUG00000029299
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: TOMM40
• Ensembl ID: ENSMLUG00000028928
• Aliases: None
• Description: None

Sequence

>retro_mluc_697
ATGGGGAACTTGTTGGCCGCTAGCTCGCCGCCCGCAGGGTCACTGCCGCCGCCCGCGCCCGCCCTCGTGGGTCTGCCGCC
TCCACCCTCTCCTCCGGGCTTCACGCTGCCGCCGCTTGGGGGCGGCATGGGTGCTGGGGCCGGCGCGGGTCGAGGTTCAG
AACGGACCCCCGGGACTGCAGGCGCCGCAGGGACCGCGGACGATGGGGCCTGCGGCTGCCTTCCCAACCCGGGCGTTCGA
GGAGTGCCACCGGAAGTGCAAGGAGCTGTTTCCTATTCAGATGGAAGGTGTCAAGCTCACAGTTAACAAAGGGCTGAGTA
ACCATTTCCAGGTGAACCACACAGTAGCCCTCAGCACAATCGGGGAGTCCAACTACCATTTCCGGGTCACGTATGTGGGG
ACAAAGCAGCTGAGTCCCACAGAGGCATTCCGCATGTTGGTGGGTGACATGGACAATAGTGGCAGCCTCAATGCTCAGGT
CATTCACCAGCTGGGCCCCGGCCTCTGGTCCAAGATGGCCATCCAGACCCAGCAGTCTAAGTTCGTGAACTGGCAGGTGG
ACGGGGAGTACCGGGGTTCTGACTTCACAGCAGCCGTCACCCTTGGGAACCCAGATGTCCTGGTGGGTTCAGGAATCCTC
GTGGCCCACTACCTCCAGAGCATCACGTGGTGTCTGGCACTGGGCGGAGAGCTGGTCTACCACCGGCGGCCTGGGGAGGA
GGGTACTGTCATGTCTCTAACTGGGAAATACACATTGAACAACTGGTTGGCGACAGTAACGTTGGGCCAGGCGGGCATGC
ACGCGACATACTACCACAAAGCCAGTGACCAGCTGCAGGTAGGCGTGGAGTTTGAGGCCAGCACAAGGATGCAAGACACG
AGCATCTCCTTCGGGTACCAGCTGGACTTGCCCAAGGCCAACCTCCTCTTCAAAGGCTCGGTGGACAGCAACTGGATCGT
GGGCGCCACGCTGGAGAAGCTCCCACCCCTGCCCCTGACGCTGGCCCTCGGGGCCTTCCTGAATCACCGAAAGAACAAGT
TCCAGTGTGGCTTTGGCCTCACCATCGGC

Alignment

ORF - retro_mluc_697 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 91.41 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  MGNVLAASSPPAGPPPPPAPALVGLPPPPSPPGFTLPPLGGGLGAGTG-GRGSERTPGTAGAA-GTR-RW
          MGN.LAASSPPAG..PPPAPALVGLPPPPSPPGFTLPPLGGG.GAG.G.GRGSERTPGTAGAA.G.R.RW
Retrocopy MGNLLAASSPPAGSLPPPAPALVGLPPPPSPPGFTLPPLGGGMGAGAGAGRGSERTPGTAGAA>GPR>RW

Parental  GLRLLPNPG-TFDIEKATTKELFPIQMEGVKLTVNKGLSNHFQVNHTVALSTIGESNYHFGVTYVGTKQL
          GLRL...PG..F.......KELFPIQMEGVKLTVNKGLSNHFQVNHTVALSTIGESNYHF.VTYVGTKQL
Retrocopy GLRLPSQPG<AFEECHRKCKELFPIQMEGVKLTVNKGLSNHFQVNHTVALSTIGESNYHFRVTYVGTKQL

Parental  SPTEAFPVLVGDMDNSGSLNAQVIHQLGPGLRSKMAIQTQQSKFVNWQVDGEYRGSDFTAAVTLGNPDVL
          SPTEAF..LVGDMDNSGSLNAQVIHQLGPGL.SKMAIQTQQSKFVNWQVDGEYRGSDFTAAVTLGNPDVL
Retrocopy SPTEAFRMLVGDMDNSGSLNAQVIHQLGPGLWSKMAIQTQQSKFVNWQVDGEYRGSDFTAAVTLGNPDVL

Parental  VGSRRILVAHYLQSITPCLALGGELVYHRRPGEEGTVMSLAGKYTLNNWLATVTLGQAGMHATYYHKASD
          VGS..ILVAHYLQSIT.CLALGGELVYHRRPGEEGTVMSL.GKYTLNNWLATVTLGQAGMHATYYHKASD
Retrocopy VGS-GILVAHYLQSITWCLALGGELVYHRRPGEEGTVMSLTGKYTLNNWLATVTLGQAGMHATYYHKASD

Parental  QLQVGVEFEASTRMQDTSVSFGYQLDLPKANLLFKGSVDSNWIVGATLEKKLPPLPLTLALGAFLNHRKN
          QLQVGVEFEASTRMQDTS.SFGYQLDLPKANLLFKGSVDSNWIVGATLE.KLPPLPLTLALGAFLNHRKN
Retrocopy QLQVGVEFEASTRMQDTSISFGYQLDLPKANLLFKGSVDSNWIVGATLE-KLPPLPLTLALGAFLNHRKN

Parental  KFQCGFGLTIG
          KFQCGFGLTIG
Retrocopy KFQCGFGLTIG

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_697 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 11 parental genes, and 16 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000130204	5 retrocopies	retro_hsap_1300, retro_hsap_1386, retro_hsap_2321, retro_hsap_2537, retro_hsap_3159,
Gorilla gorilla	ENSGGOG00000023033	1 retrocopy	retro_ggor_1356,
Microcebus murinus	ENSMICG00000014041	1 retrocopy	retro_mmur_420,
Myotis lucifugus	ENSMLUG00000028928	1 retrocopy	retro_mluc_697 ,
Macaca mulatta	ENSMMUG00000014303	1 retrocopy	retro_mmul_1998,
Nomascus leucogenys	ENSNLEG00000001726	2 retrocopies	retro_nleu_2368, retro_nleu_2542,
Oryctolagus cuniculus	ENSOCUG00000023582	1 retrocopy	retro_ocun_1143,
Pongo abelii	ENSPPYG00000025858	1 retrocopy	retro_pabe_174,
Pan troglodytes	ENSPTRG00000011126	1 retrocopy	retro_ptro_39,
Ictidomys tridecemlineatus	ENSSTOG00000009019	1 retrocopy	retro_itri_150,
Drosophila melanogaster	FBgn0016041	1 retrocopy	retro_dmel_74,