RetrogeneDB ID: retro_mluc_1282

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL429814:5610406..5611752(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMLUG00000025547
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSMLUG00000017740
• Aliases: None
• Description: None

Sequence

>retro_mluc_1282
ATGAAGTGTGAGCACTGCACACAGAAGGAATGTGGTAAAAAAACAAAAACTGATGACCAAGAGAATGCTGCAGTCAATGT
CCAGAGTCCGGCTCAGGAGAACGGAGAGAAGGGAGAATTCCATAAGTTAGCCGATGCCAAGATATTTCTGAGTGACTGCC
TGGCGTGTGACAGTTGTGTGACCGCAGAGGAAGGAGTCCAAGTTTCTCAACAGAACACCAAGGACTTCTTCCATGTTCTG
AACCTTAATAAGAAATGTGATACCTCACAGCACAAGGTGCTGGCAGTGTCCATGTGTCCTTAGTCTGTGCCTTATTTTGC
TGCTAAATTCAGCCTCAGTGACACTGATGCATCCAGAAGGCTCTGCAGCTTTCTCAAAAGCCTTGGGGCGCACTGTCTTT
GACATGAAGATAGCTGCGGACTTCAGCATCCTGGAGAGTCAGAAGGAATTTGTGCATCAGTACTGCCAGCACCGTGAGGA
AGAGCCCGGCTACCCATGCTGATCTCCGCCTGCCCCGGCTGGGTCTGATATGCAGAGCACGTGCTGGGTCACCCCATCAC
CCCCCACCTCTGCAGGCCAAGTCTCCCCAGCAGATCATGGGCTCTCTGGTGAAGGATTACTTCGCCAGCCAGCAGAACCT
GTCCCCAGACAAGATTTTCCACGTCATTGTGGCCCCGTGTTATGACAAGAAACTGGAGGCCCTTAGAGAAGATGTTCCCA
CAGCTTTACATAGTTCCCAGGGGCTGACTGCGTGTTAACCTCAGGTGCAATTGTCCAGATAATGGAGCAAAGTGACCTCA
CCTCGAATGACGCTGCCGTGGACACTCTGTTTGGAGACATGAAGGAGGAGGAGGTGAGGCTCCACGAGGGTGCCAGCTCC
GACGGGTACCTGGCGCACATCTTCAGGCACACGGCCAAGGAGCTGTTCAACGAGGATGTGGGGATGCTCACCTACCACAC
TCTGAGGAACAAAGACTTCCAGGAGGTCACCCTTGAAAGGGATGGACAGGTTCTGTTACGCTTTGAGGCTGCTTACAGCT
TTCAGAACATCCAGAAGTGGTCCTGAAGCTGTAGAGGGGCAAGTTCCCCTGCCACTTCGTGGAGGTCCTGGCCTGCACCG
GGGATGCCTAAGCAGCAGGGGCCAGGCCCAGGCAGATGATGGATATGCAGACAGGGCACTGCTGCGGCAGATGGAAGGCA
TCTATGCTGCCATCCCGGTGTGGCCCTAGGAGACCAGCGCCCATGTGCGGGAGCTGTACCAGGAGTGGTTGGGGATGGGG
GGTGGCAACTCCCCTTGGGCCCAGGCTGCCCTGCACACCGCCTAGCAGGGCCCAGGGCAGCCTGCC

Alignment

ORF - retro_mluc_1282 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.83 %
• Parental protein coverage: 98.47 %
• Number of stop codons detected: 5
• Number of frameshifts detected: 6

Retrocopy - Parental Gene Alignment:

Parental  MKCEHCTRKECSKKTKTDDQENASADAPSPAQENGEKGEFHKLADAKIFLSDCLACDSCVTAEEGVQVSQ
          MKCEHCT.KEC......DDQENA.....SPAQENGEKGEFHKLADAKIFLSDCLACDSCVTAEEGVQVSQ
Retrocopy MKCEHCTQKECGXXXXXDDQENAAVNVQSPAQENGEKGEFHKLADAKIFLSDCLACDSCVTAEEGVQVSQ

Parental  QNAKDFFRVLNLNKKCDASQHKVLAVSVCPQSLPYFAAKFSLSVTDASRRLCGFLKS-LGVHYVFDMTIA
          QN.KDFF.VLNLNKKCD.SQHKVLAVS.CP.S.PYFAAKFSLS.TDASRRLC.FLKS.LG...VFDM.IA
Retrocopy QNTKDFFHVLNLNKKCDTSQHKVLAVSMCP*SVPYFAAKFSLSDTDASRRLCSFLKS>LG-RTVFDMKIA

Parental  ADFSILESQKEFVRRYRQHREEEP-RLPMLTSACPGWVRYAERVLGHPITPHLCT-AKSPQQIMGSLVKD
          ADFSILESQKEFV..Y.QHREEEP.RLPML.SACPGWV.YAE.VLGHPITPHLC..AKSPQQIMGSLVKD
Retrocopy ADFSILESQKEFVHQYCQHREEEP<RLPMLISACPGWV*YAEHVLGHPITPHLCR<AKSPQQIMGSLVKD

Parental  YFARRQNLSPDKIFHVIVAPCYDKKLEALREDVPTALHSSRG-ADCVLTSGEIVQLMEQSDLSADDALVD
          YFA..QNLSPDKIFHVIVAPCYDKKLEALREDVPTALHSS.G.ADCVLTSG.IVQ.MEQSDL...DA.VD
Retrocopy YFASQQNLSPDKIFHVIVAPCYDKKLEALREDVPTALHSSQG<ADCVLTSGAIVQIMEQSDLTSNDAAVD

Parental  TLLTRFGDVKEEEVRRHEGASSDGYLAHIFRHAAKELFNEDVGALTYRSLRNKDFQEVTLERDGEVLLRF
          TL...FGD.KEEEVR.HEGASSDGYLAHIFRH.AKELFNEDVG.LTY..LRNKDFQEVTLERDG.VLLRF
Retrocopy TL---FGDMKEEEVRLHEGASSDGYLAHIFRHTAKELFNEDVGMLTYHTLRNKDFQEVTLERDGQVLLRF

Parental  AAAYGFRNIQ-NVVLKLKRGKFPYHFVEVLACAG-GCLSGRGQAQAEDGRADRALLRQMEGIYAAIPVRP
          .AAY.F.NIQ..VVLKL.RGKFP.HFVEVLAC.G.GCLS.RGQAQA.DG.ADRALLRQMEGIYAAIPV.P
Retrocopy EAAYSFQNIQ<EVVLKL*RGKFPCHFVEVLACTG<GCLSSRGQAQADDGYADRALLRQMEGIYAAIPVWP

Parental  PETSAHVQELYQEWL--GGADSP-RPRALHTAYQGPGQSA
          .ETSAHV.ELYQEWL..GG..SP....ALHTA.QGPGQ.A
Retrocopy *ETSAHVRELYQEWLGMGGGNSPWAQAALHTA*QGPGQPA

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_1282 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 5 parental genes, and 27 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000018178	1 retrocopy	retro_btau_820,
Canis familiaris	ENSCAFG00000012976	1 retrocopy	retro_cfam_659,
Dasypus novemcinctus	ENSDNOG00000011246	1 retrocopy	retro_dnov_1757,
Echinops telfairi	ENSETEG00000009329	1 retrocopy	retro_etel_999,
Myotis lucifugus	ENSMLUG00000017740	23 retrocopies	retro_mluc_1006, retro_mluc_1012, retro_mluc_1083, retro_mluc_1091, retro_mluc_1124, retro_mluc_1256, retro_mluc_1282 , retro_mluc_1457, retro_mluc_1573, retro_mluc_1622, retro_mluc_1632, retro_mluc_1700, retro_mluc_1718, retro_mluc_1898, retro_mluc_1973, retro_mluc_2365, retro_mluc_671, retro_mluc_688, retro_mluc_817, retro_mluc_825, retro_mluc_877, retro_mluc_879, retro_mluc_982,