RetrogeneDB ID: retro_mluc_1741

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL429898:802031..802703(-)
• Located in intron of: ENSMLUG00000004024

Retrocopy information

• Ensembl ID: ENSMLUG00000002632
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSMLUG00000009117
• Aliases: None
• Description: None

Sequence

>retro_mluc_1741
CTGAACCTGGTAGGGCACGAGGAGGTGAAGTGTGGCCGGGCAGGTGCTGTGAGATGCCGGCTATGAGTTTGACATCTGCT
TCACCTCAGTGCAAAAGAAAGCAATTAGGACCCTCTGGAGAGTGCTGGATGCCATTGACCACATGTGGCTGCCTGTAGTG
AGGACTTGGAGTCTCAATGAGTGGCACTATGGGGGTCTCACAGGCCTTAATAAAGCAGAAACTGCTGCCAAGCATGGCGA
GGCCCAGGTAAAGATCTGGAGGCACTCTTATGATATCCCACCATCACCAATGGAGCCCGATCATCCCTTTTACAGCAGTA
TCAGTAAGGATTGCAGTTATGTAGACCTCACTGAAGATCAGCTACCCTCCTACGAGAATCTGAAGGACGCTACTGCCAGA
GCTCTGTCCTTTTGCAATGAAGAAATAGTGCCCCAGATCAAGGAGGGGAAATGGGTACTGATTGCAGCCCATGGCAACAG
CCTTCGGGGCATTGTCAAACATCTGGAGGGTCTTTCTGAAGAGGCTATCATGGAGCTGTACCTGCCGACTGGTATTCCCA
TTGTCTATGAACTGGACAAGAACTTGACGCCCATCAAGCCCATGCAGTTCCTGGGGATGAAGAGACAGTGCATAAAGCTA
TGGAAGCTGTGGCTGCCCAGGGCAAGGCCAAG

Alignment

ORF - retro_mluc_1741 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 84.07 %
• Parental protein coverage: 88.19 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  LSPAGHEEAKRG-GQALPDAGYEFDICFTSLLKRAIRTLWIVLDVTDQMWLPVVRTWRLNERHYGALTGL
          L...GHEE.K.G.GQ.L.DAGYEFDICFTS..K.AIRTLW.VLD..D.MWLPVVRTW.LNE.HYG.LTGL
Retrocopy LNLVGHEEVKCG>GQVL*DAGYEFDICFTSVQKKAIRTLWRVLDAIDHMWLPVVRTWSLNEWHYGGLTGL

Parental  NKAETAAKHGEAQVKIWRRSYDIPPPPMEPDHPFYSNISKDRRYADLTEDQLPSSESLKDTIARALPFWN
          NKAETAAKHGEAQVKIWR.SYDIPP.PMEPDHPFYS.ISKD..Y.DLTEDQLPS.E.LKD..ARAL.F.N
Retrocopy NKAETAAKHGEAQVKIWRHSYDIPPSPMEPDHPFYSSISKDCSYVDLTEDQLPSYENLKDATARALSFCN

Parental  EEIVPQIKEGKRVLIAAHGNSLRGIVKHLEGLSEEAIMELNLPTGIPIVYELDKNLKPIKPMQFL-GDEE
          EEIVPQIKEGK.VLIAAHGNSLRGIVKHLEGLSEEAIMEL.LPTGIPIVYELDKNL.PIKPMQFL.GDEE
Retrocopy EEIVPQIKEGKWVLIAAHGNSLRGIVKHLEGLSEEAIMELYLPTGIPIVYELDKNLTPIKPMQFL<GDEE

Parental  TVRKAMEAVAAQGKTK
          TV.KAMEAVAAQGK.K
Retrocopy TVHKAMEAVAAQGKAK

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_1741 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 62 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000012697	2 retrocopies	retro_btau_1611, retro_btau_472,
Canis familiaris	ENSCAFG00000009062	1 retrocopy	retro_cfam_1297,
Callithrix jacchus	ENSCJAG00000016575	1 retrocopy	retro_cjac_370,
Cavia porcellus	ENSCPOG00000006844	4 retrocopies	retro_cpor_158, retro_cpor_539, retro_cpor_605, retro_cpor_660,
Echinops telfairi	ENSETEG00000002467	1 retrocopy	retro_etel_1595,
Homo sapiens	ENSG00000171314	12 retrocopies	retro_hsap_1048, retro_hsap_1052, retro_hsap_1142, retro_hsap_2235, retro_hsap_2604, retro_hsap_3083, retro_hsap_3488, retro_hsap_4249, retro_hsap_4686, retro_hsap_4821, retro_hsap_885, retro_hsap_913,
Gorilla gorilla	ENSGGOG00000028602	13 retrocopies	retro_ggor_1220, retro_ggor_1500, retro_ggor_1667, retro_ggor_1824, retro_ggor_2061, retro_ggor_2118, retro_ggor_2353, retro_ggor_2849, retro_ggor_3005, retro_ggor_3034, retro_ggor_716, retro_ggor_738, retro_ggor_827,
Myotis lucifugus	ENSMLUG00000009117	6 retrocopies	retro_mluc_1280, retro_mluc_1595, retro_mluc_1741 , retro_mluc_2246, retro_mluc_632, retro_mluc_745,
Macaca mulatta	ENSMMUG00000020027	1 retrocopy	retro_mmul_119,
Monodelphis domestica	ENSMODG00000004242	4 retrocopies	retro_mdom_1342, retro_mdom_1893, retro_mdom_610, retro_mdom_668,
Pongo abelii	ENSPPYG00000002530	9 retrocopies	retro_pabe_1325, retro_pabe_2309, retro_pabe_2554, retro_pabe_2639, retro_pabe_2881, retro_pabe_3389, retro_pabe_3639, retro_pabe_3749, retro_pabe_671,
Rattus norvegicus	ENSRNOG00000050585	7 retrocopies	retro_rnor_1669, retro_rnor_2241, retro_rnor_2275, retro_rnor_2361, retro_rnor_2568, retro_rnor_691, retro_rnor_703,
Drosophila melanogaster	FBgn0014869	1 retrocopy	retro_dmel_57,