RetrogeneDB ID: retro_mluc_410

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: AAPE02060845:11461..13338(-)
• Located in intron of: ENSMLUG00000029603

Retrocopy information

• Ensembl ID: ENSMLUG00000026781
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: CCDC22
• Ensembl ID: ENSMLUG00000009356
• Aliases: None
• Description: None

Sequence

>retro_mluc_410
TTGGAGGAGGCAGACAGAATCCTCATCCATTCCCTGCACCAGGCCGGCGCGGCAGTTCCTCCGGGAGTGCAGACCCTGCG
AGCCTTCACCACTGAGCTAGTTGTCGAAGCCGTTGTCTGTTGCCTGCGTGTGATCAATCCTGCTGTGGGCTCCGGCCTCA
GCCCCCTGCTGCCTCTCGCCATGTCTGCCTGTTTCCACCTGGCCATGAGCCTGGCTCAGGCCTGCATGGACCTGGGCTAT
CCTTTGGAGCTTGGCTATCAGAACTTCCTCTACCCCAGTGAGCCTGACCTCCGGGACCTGCTTCTCTTCTTGGCTGAGCG
TCTACCTGCCAATGCCTCTGAGGACGCAGACCAGCCTGCAGGTGACTCAGCGATCCTTCTCCGGGCCATCGGGGGCCACA
TTCGGGACCAGCTGGCCCTGCCCTGGGTTCCACCCCTTCTTCGCACTCCTAAGCTGCAGCACCTCCAGGGCTCGGCCCCC
CAGAATCCTTTCCATGCCAGGAAGCTGGTCGTGCCTGAATTGAGTTCCACAGGAGAGCCCCGGGAGTTCCAGGCAAGTTC
CCTGCTACTACCAGCCCCCACGCAGGTGCCTCAGCCTGCCGGGAGGGTGGCCTCGCTCCTCGAACACCATGCCATCCAGC
TCTGCCAGCACACAGCCCGGGACCACCCTGGGGACAAGGCCTGGGTCCACCAGGCATCCTGTCTCCCCGCACAGGATAGG
CGGGCTCAGCTGCAGCAGCTGCAGAAGCACCTGACTGAGCATCTGCATCAGACCTGGGGCCAGCTGGGGGCCCCCCCACA
AACCCAGGACTTGGGAGAGCTGCTGCAGGCCTGGGGTGCTGGGACCACGGCTGGTGCTCCCAAGGGCTCCCGCTTCACAC
ATTCAGAGAAGTTCACCTTCCATCTGGAGCCCGAGGCCCAGGTAGCCCAGGTGTCAGCTGTGCCAGCCACCTCCCGGTGG
CCTGAACCAGACACGTGGGCAGCTCAAGAGCAGGAGCTGGAGGCTCTCCGGGAGCTGCTAAATGGAGTGAACCTTATCAT
TGAAGAGGTTGCAGCCAACAGGAAGACGCTGGGAATCGGCCTTGTGCAGATGGAGACCCGGTGTCGGCAGACGGAGCTCA
GCACAACGGAGAGGGAGCAGGCCCTGCACCTGAAGTGCCGGGCGGTGCAGCTGCTGCCAGACGGGGCTGCCAACCTTGCC
AAGCTACAGCTCGTGGTAGAGAGTAGTGCCCAGCGGTCATCCACTTGGCGGGCCAGTGGGAAAAGCACCGGGCCCCGCTC
CTTGCTGAGTACCGCCACCTCCGAAAGCTCCAGGTTTGCAGAGAGCTGGAATCTTCTCGGCGGCTGGCAGAGATCCAGGA
GCGGCACCGGAGCGTTCGGGCCGCTGCTGAAGAGGCCCGCAGGAAGGAGGGGATCTATAAGCGGCTGGTGTCCGAGCTGG
AGACCCTGCCCAGAGACGTGTCCCGGCCGGCCTGTACCCAGCGCATCCTGGAGATTGTGGGTAACATCCGGAAGCAGAAG
GAAGAGATCACTAAGATCTTGTCTGACACAAGGCAGCTTCAGAAGGAAATCGACTCCCTGTCTGGGAAGCTGGACCGGAC
ATTTGCGGTGACTGATGAGCTGGTGTTCACGGACGCCAAGAAGGATGGTGCTCTGCGGAAGGCCTACAAGTTCCTAGCTG
CCTTGCATGAGCACTGCAGCCAGCTCCTCCAGACCATCGAGGACCTGGGCACCCTCCTGCGGGAGGTCCGAGACCTGGAG
GAGCAGATCGAGACTGAGATGGGCAAGAAGACCCTCAGCAACCTGGAGAAGATCCAAGAGGACTTCCGGGCCCTTCGCCA
GGAGAACGCTGGCCTCCAGGGGCAGGTCCATGAGACC

Alignment

ORF - retro_mluc_410 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.67 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MEEADRILIHSLRQAGTAVPPEVQTLRAFTTELVVEAVVRCLRVINPAVGSSLSPLLPPAMSARFRLAMS
          .EEADRILIHSL.QAG.AVPP.VQTLRAFTTELVVEAVV.CLRVINPAVGS.LSPLLP.AMSA.F.LAMS
Retrocopy LEEADRILIHSLHQAGAAVPPGVQTLRAFTTELVVEAVVCCLRVINPAVGSGLSPLLPLAMSACFHLAMS

Parental  LAQACMDLGYPLELGYQNFLYPSEPDLRDLLLFLAERLPTDASEDADQPAGDSAILLRAIGSQIRDQLAL
          LAQACMDLGYPLELGYQNFLYPSEPDLRDLLLFLAERLP..ASEDADQPAGDSAILLRAIG..IRDQLAL
Retrocopy LAQACMDLGYPLELGYQNFLYPSEPDLRDLLLFLAERLPANASEDADQPAGDSAILLRAIGGHIRDQLAL

Parental  PWVPPLLRTPKLQRLQGSGPQNPFHASRLAMPELSSKGEAREFQASSLLLPAPTQVPQPAGRVASLLECH
          PWVPPLLRTPKLQ.LQGS.PQNPFHA..L..PELSS.GE.REFQASSLLLPAPTQVPQPAGRVASLLE.H
Retrocopy PWVPPLLRTPKLQHLQGSAPQNPFHARKLVVPELSSTGEPREFQASSLLLPAPTQVPQPAGRVASLLEHH

Parental  AIQLCQHTGQDHPGDKDWVHRASRHPTQEDTRAQRQRLQKHLAEHLRQTWGQLGPSSQARDLGELLQAWG
          AIQLCQHT..DHPGDK.WVH.AS..P.Q.D.RAQ.Q.LQKHL.EHL.QTWGQLG...Q..DLGELLQAWG
Retrocopy AIQLCQHTARDHPGDKAWVHQASCLPAQ-DRRAQLQQLQKHLTEHLHQTWGQLGAPPQTQDLGELLQAWG

Parental  AGTKTGAPKGSRFTHSEKFTFHLEPEAQAAQVSEVLSTSRWPEQDTWAAQEQELEALQEQLEGVNRNIEE
          AGT..GAPKGSRFTHSEKFTFHLEPEAQ.AQVS.V..TSRWPE.DTWAAQEQELEAL.E.L.GVN..IEE
Retrocopy AGTTAGAPKGSRFTHSEKFTFHLEPEAQVAQVSAVPATSRWPEPDTWAAQEQELEALRELLNGVNLIIEE

Parental  IGASMKTLGIGLVQVETECRQTELSMAEREQALRLKSQAVELLPDGAANLAKLQLVVESSAQR-VIHLAG
          ..A..KTLGIGLVQ.ET.CRQTELS..EREQAL.LK..AV.LLPDGAANLAKLQLVVESSAQR.VIHLAG
Retrocopy VAANRKTLGIGLVQMETRCRQTELSTTEREQALHLKCRAVQLLPDGAANLAKLQLVVESSAQR<VIHLAG

Parental  QWEKHRVPLLAEYRHLRKLQDCRELESSRRLAEIQELHQSVRAAAEEARRKEEVYKQLVSELETLPRDVS
          QWEKHR.PLLAEYRHLRKLQ.CRELESSRRLAEIQE.H.SVRAAAEEARRKE..YK.LVSELETLPRDVS
Retrocopy QWEKHRAPLLAEYRHLRKLQVCRELESSRRLAEIQERHRSVRAAAEEARRKEGIYKRLVSELETLPRDVS

Parental  RLAYTQRILEIVGNIRKQKEEITKILSDTKELQKEINSLSGKLDRTFAVTDELVFKDAKKDDAVRKAYKY
          R.A.TQRILEIVGNIRKQKEEITKILSDT..LQKEI.SLSGKLDRTFAVTDELVF.DAKKD.A.RKAYK.
Retrocopy RPACTQRILEIVGNIRKQKEEITKILSDTRQLQKEIDSLSGKLDRTFAVTDELVFTDAKKDGALRKAYKF

Parental  LAALHENCSQLIQTIEDTGTIMREVRDLEEQIETEMGKKTLSNLEKIQEDYRALRQENAGLLGRVRET
          LAALHE.CSQL.QTIED.GT..REVRDLEEQIETEMGKKTLSNLEKIQED.RALRQENAGL.G.V.ET
Retrocopy LAALHEHCSQLLQTIEDLGTLLREVRDLEEQIETEMGKKTLSNLEKIQEDFRALRQENAGLQGQVHET

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_410 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 3 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000012144	1 retrocopy	retro_amel_131,
Myotis lucifugus	ENSMLUG00000009356	2 retrocopies	retro_mluc_2141, retro_mluc_410 ,
Mustela putorius furo	ENSMPUG00000014046	1 retrocopy	retro_mputfur_865,