RetrogeneDB ID: retro_mluc_1296

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL429816:1361778..1362209(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMLUG00000001973
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: CDV3
• Ensembl ID: ENSMLUG00000009864
• Aliases: None
• Description: None

Sequence

>retro_mluc_1296
AGTGAAGAGGAAGAAGATGACAGTGAAAAAAGAGAAGATCCAGGTGACAACTGGGAAAAAGGTGAAGGTGGTGGTGGTGG
TGTAGAAAAATCTTCAGGTCCCTGGAATAAAACAGCTCTGATAAAAGCACCCCTTGCTCCAGTAATTGTTACAGAAACGC
CAGAACTGGCAATGACTAATGGTGTCTATAGGCCTCCTGGAGCCAGGCTAACCACAAGGAAAACATCACAAGGGCCACCA
GAAAACATACAGTGATACACCATTCCAATCCCTGCAGTCCATTGCCAAGAAGGTAGAAAGCCAAAAGGATAAAGAAATGG
AGAAGAGCTTTGAAGTCGTTAGTAAGACACAAAACTAGAGGCAGAGATGAGGTTTCAAAAAACCAGGCCCTTAAACTTCA
GCTAGACAACCAGCATACTATGCTTAACAAT

Alignment

ORF - retro_mluc_1296 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 78.08 %
• Parental protein coverage: 94.08 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  SEKEEDDSEKREDPGDNWEEGGGGGGGVEKSSGPWNKTAPVQAPPAPVVVTETPEPAMTSGVYRPPGARL
          SE.EEDDSEKREDPGDNWE.G.GGGGGVEKSSGPWNKTA...AP.APV.VTETPE.AMT.GVYRPPGARL
Retrocopy SEEEEDDSEKREDPGDNWEKGEGGGGGVEKSSGPWNKTALIKAPLAPVIVTETPELAMTNGVYRPPGARL

Parental  TTTRKTPQGPPE-IYSDTQFPSLQSTAKHVESRKD-KEMEKSFE-VVRHKTRGRDEVSKNQALKLQLDNQ
          TT.RKT.QGPPE..YSDT.F.SLQS.AK.VES.KD.K.........VRHKTRGRDEVSKNQALKLQLDNQ
Retrocopy TT-RKTSQGPPE>TYSDTPFQSLQSIAKKVESQKD>KKWRRALKSLVRHKTRGRDEVSKNQALKLQLDNQ

Parental  YTVLEN
          .T.L.N
Retrocopy HTMLNN

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_1296 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 15 parental genes, and 38 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000035556	1 retrocopy	retro_btau_253,
Choloepus hoffmanni	ENSCHOG00000008963	5 retrocopies	retro_chof_1355, retro_chof_1701, retro_chof_1763, retro_chof_2308, retro_chof_818,
Callithrix jacchus	ENSCJAG00000002998	1 retrocopy	retro_cjac_2928,
Dasypus novemcinctus	ENSDNOG00000010208	5 retrocopies	retro_dnov_2359, retro_dnov_2616, retro_dnov_460, retro_dnov_496, retro_dnov_656,
Homo sapiens	ENSG00000091527	1 retrocopy	retro_hsap_2678,
Gorilla gorilla	ENSGGOG00000027821	1 retrocopy	retro_ggor_1869,
Myotis lucifugus	ENSMLUG00000009864	1 retrocopy	retro_mluc_1296 ,
Mus musculus	ENSMUSG00000032803	10 retrocopies	retro_mmus_1266, retro_mmus_2405, retro_mmus_2408, retro_mmus_2411, retro_mmus_2412, retro_mmus_2416, retro_mmus_2418, retro_mmus_2422, retro_mmus_2423, retro_mmus_2534,
Nomascus leucogenys	ENSNLEG00000003470	1 retrocopy	retro_nleu_1181,
Oryctolagus cuniculus	ENSOCUG00000012748	1 retrocopy	retro_ocun_1106,
Ochotona princeps	ENSOPRG00000003600	3 retrocopies	retro_opri_1017, retro_opri_739, retro_opri_740,
Pongo abelii	ENSPPYG00000025898	1 retrocopy	retro_pabe_2301,
Pan troglodytes	ENSPTRG00000015409	1 retrocopy	retro_ptro_1805,
Sus scrofa	ENSSSCG00000011637	1 retrocopy	retro_sscr_701,
Tupaia belangeri	ENSTBEG00000014910	5 retrocopies	retro_tbel_2284, retro_tbel_2443, retro_tbel_4022, retro_tbel_4157, retro_tbel_4378,