RetrogeneDB ID: retro_mluc_2339

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL430229:81070..81737(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMLUG00000026668
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: POLR3D
• Ensembl ID: ENSMLUG00000002109
• Aliases: None
• Description: None

Sequence

>retro_mluc_2339
TCGGGAGGAAAGGCCTCGGGCGAGCCCAGCGCTCCGGGAGCGCCCCGCGCCCTCCCCTCTGGCGCCCGGGGGCTTATTGG
ACAGCGGCTGGCGCCACACCTCACCCCGGGGCCGCCTTCCCTCCATCCGCTCCAGGGATCTCACCCTCGGGGGAGTCAAG
AAGAAAACCTTCACTCCAAATATCATCAGTCGGAAGATCAAGGAAGAACCCAAGGAAGAAGTGACCATTAAGGAGAAGCG
TGAAAGGGATAGAGACCGACAGCGAGAGGGTCATGGACGGGGCCGGGGTCGACCAGAAGTGATCCAGTCCCATTCCATCT
TCGAGCAGGGCCCAGCTGAAATGATGAAGAAAAAGGGGAACTGGGATAAGACAGTGGATGTGTCGGACTTGGGACCCTCT
CATATCATCAACATCAAAAAAGAGAAGAGAGAGACAGACAAAGAAACAAAACAGATCCCGCGCATGCTGGAGAAGGATGA
TTTCGTCGCTGACCCTGGGCTGAGGAATGACACTCGAAACATGCCTGTACAGCTGCCTCTGGCTCACTCCGGGTGGTTGT
TTAAGGAAGAGAATGAAGAACCAGATATTAAACCTTGGCTGGCTGGCCCCAAGGAAGAGGACATGGAGGTGGATGTGCCC
GTTGTGAAAATAAAAGAGGAGGCCAAG

Alignment

ORF - retro_mluc_2339 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 87.95 %
• Parental protein coverage: 56.03 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  SGGKAAGEPSAPGAPRALLSGARGLIGQRPAPHLTPG-RLPSIRSRDLTLGGVKKKTFTPNIISRKIKEE
          SGGKA.GEPSAPGAPRAL.SGARGLIGQR.APHLTPG.RLPSIRSRDLTLGGVKKKTFTPNIISRKIKEE
Retrocopy SGGKASGEPSAPGAPRALPSGARGLIGQRLAPHLTPG>RLPSIRSRDLTLGGVKKKTFTPNIISRKIKEE

Parental  PKEEVTIKKEKRERDRDRQREGHGRGRGRPEVIQSHSIFEQGPAEMMKKKGNWDKTVDVSDMGPSHIINI
          PKEEVTI.KEKRERDRDRQREGHGRGRGRPEVIQSHSIFEQGPAEMMKKKGNWDKTVDVSD.GPSHIINI
Retrocopy PKEEVTI-KEKRERDRDRQREGHGRGRGRPEVIQSHSIFEQGPAEMMKKKGNWDKTVDVSDLGPSHIINI

Parental  KKEKRETDEETKQILRMLEKDDFIDDPGLRNDTRNMPVQLPLAHSGWLFKEENEEPDVKPWLAGPKEEDM
          ...............RMLEKDDF..DPGLRNDTRNMPVQLPLAHSGWLFKEENEEPD.KPWLAGPKEEDM
Retrocopy XXXXXXXXXXXXXXPRMLEKDDFVADPGLRNDTRNMPVQLPLAHSGWLFKEENEEPDIKPWLAGPKEEDM

Parental  EVDVPVVKVKEEPR
          EVDVPVVK.KEE..
Retrocopy EVDVPVVKIKEEAK

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_2339 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 12 parental genes, and 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000013488	1 retrocopy	retro_dnov_1681,
Equus caballus	ENSECAG00000025090	1 retrocopy	retro_ecab_43,
Erinaceus europaeus	ENSEEUG00000007632	2 retrocopies	retro_eeur_277, retro_eeur_705,
Homo sapiens	ENSG00000168495	1 retrocopy	retro_hsap_596,
Macropus eugenii	ENSMEUG00000000465	1 retrocopy	retro_meug_1550,
Myotis lucifugus	ENSMLUG00000002109	1 retrocopy	retro_mluc_2339 ,
Macaca mulatta	ENSMMUG00000023226	1 retrocopy	retro_mmul_2449,
Monodelphis domestica	ENSMODG00000009491	1 retrocopy	retro_mdom_988,
Nomascus leucogenys	ENSNLEG00000015502	1 retrocopy	retro_nleu_2218,
Pongo abelii	ENSPPYG00000018419	1 retrocopy	retro_pabe_594,
Pan troglodytes	ENSPTRG00000020056	1 retrocopy	retro_ptro_439,
Tursiops truncatus	ENSTTRG00000012745	1 retrocopy	retro_ttru_1189,