RetrogeneDB ID: retro_mluc_774

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL429774:14873338..14874979(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: CDT1
• Ensembl ID: ENSMLUG00000003204
• Aliases: None
• Description: None

Sequence

>retro_mluc_774
ATGGCGCAGCGCGGGGTACCGACTTCTTCTTGCTCAGCTGCCCTGGTCCCCAGCGCCGTGTCTTTGCGGGCCCAGGGAAA
CTGGGGCACCCCCAGCCCCGCCAAGTCCGCGCTTCGCGCTCAGGTTCCCACCTTGGGCGGCAGCCGCAAGCGCGCCCGCC
CGCCTGCCGAGCCTACGAGCGATGAGCCCACGCGAGACCAGCCAGCGCCGCCTGCGCGCAGGAGGTTGAGGCTGCCCGCC
GATGTGGTCTCTGGCCCTGGCTCCCCAGAGCACTCCTCTCCAAGCAAGAAGACAAAGAAGGCTGCCCTCTCAGGTCAGCT
GCCCAAACTGGCACCCCAGAAGGACAAGGTCTCCTCGAAAGTCATCCTCTCTGAACTCGAGTCATGCCTGCAGCGGGCCC
AGGAGCTGGGGGCACGGGCCCAGGAACTGAGGGCAAGTGCCTCGGGGAATGATGCCAAGGAACCCAGTGTGCTGGAGGCC
GAGGGGCACCCAGCAGAGCCATGTGAAGAGAAGGCACCTGCCTATCAACGCTTCCATGCCCTGGCCCAGCCAGGCCTTCC
TGGCCTCGTGCTGCCTTACAAGTACCAGGTGTTGGCTGAGATGTTCCGCAGCATGGACACCATTGTGGGCATGCTCTACA
ACTGCTCAGAGACCGTGACCTTTGCCAAGGTCAAGCAGGGTGTCCAGGACATGATGCGGAAGCGCTTTGAGGAGCGCAAT
GTGGGCCAGATCAAAACCGTGTATCCTACCTCCTACCGCTTCCGCCAGGAGCGCAACATCCCCACCTTCAAAGACAATGT
CAAGAGGTCCGATTATCAGCTCACCATCTAGCCACTGTTGGATCAGGAGGTTGGCAACGTGGCCCCCCAGCTCACAGCCT
CACGCCTCCTACAGCGGCAACAGGTCTTTAGCCAGAACCTGGTGGAGCGTGTTCGGGATCACCACAGGGTCTTCCTGGCC
TCCCTGAATCCCCCCATGGTGGTGCCTGAGGACCGGCTGACACGCTGGCACCCTCGCTTCAACGTGGATGAAGTGCCTGA
CATCGAGCCTGCTGAGCTGCCCCAGCCACCCACCACAGAGACGCTGGCCACTGCTCAGGAGGTGCTGGCTCGAGCCCGAA
GTCTGATGTCACCCAGGATGGAGAAGGCCCTGAATGACTTAGTCCTGCGCACAGCTGTGCCCAGCAGCCCTGTGTCCTCC
AGCCCGGTACTGCCAGCGACCCCTCCAGCCACTCCACCTGCTCCCCTGAAGGGGGTGTCCCAGGACCTGCTGGAGCGGAT
CCGGGCCAAGGAGGTGCAGAAGCAGCTGGCACAGATGACGCGGTGCCCAGAGCAGGAGCAGAGGTTGCAGCGGCTTGAGC
GGCTGCCTGAATTGGCCCGGGTATTGCGTAGCATCTTTGTGTCAGAGCGCAAGCCAGCACTCACCATGGAGGTGGCCTGT
GCCAGGATGGTAGGCAGCTACCATGTGGCCATGAGCTCAGGGGAGATGGAGAAACACGTGCAGCTCCTCTCTGAGCTACT
GCCTGACTGGCTTAGTCTCCACCGCATCCGAACTGATACCTATGTCAAGCTGGACAAGGCTGCTGATTTGGCGAGTGTCA
CTGCACAGCTGGCCCGCCTTGCTCGTGCTGAGGAGATGCTG

Alignment

ORF - retro_mluc_774 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 88.75 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MAQRRV-TDFFLRRRPGPR-AASLRAKPNWRTPSPAKSALRAQVPTSGGSRKRARPSAEPTSDEPPRDEP
          MAQR.V.TDFFL...PGP..A.SLRA..NW.TPSPAKSALRAQVPT.GGSRKRARP.AEPTSDEP.RD.P
Retrocopy MAQRGV<TDFFLLSCPGPQ>AVSLRAQGNWGTPSPAKSALRAQVPTLGGSRKRARPPAEPTSDEPTRDQP

Parental  TRDQPAPTARRRLRLPDDVVPGPGSPATSGSPEHSSPSKKTKKAALSGQLPKPAPQKDKVSSKVTLSELK
          ......P..RR.LRLP.DVV.GPGSP..S.SP..S...KK...AALSGQLPK.APQKDKVSSKV.LSEL.
Retrocopy A----PPARRR-LRLPADVVSGPGSPEHS-SP--SKKTKK---AALSGQLPKLAPQKDKVSSKVILSELE

Parental  SCLQRARELGARAQELRASAPGNDAGEPSVLEAEGHPAEPCEEKAPAYQRFHALAQPGLPGLVLPYKYQV
          SCLQ..............SA.GNDA.EPSVLEAEGHPAEPCEEKAPAYQRFHALAQPGLPGLVLPYKYQV
Retrocopy SCLQXXXXXXXXXXXXXXSASGNDAKEPSVLEAEGHPAEPCEEKAPAYQRFHALAQPGLPGLVLPYKYQV

Parental  LAEMFRSMDTIVGMLYNRSETVTFAKVKQGVQDMMRKRFEERNVGQIKTVYPTSYRFRQERNIPTFKDNV
          LAEMFRSMDTIVGMLYN.SETVTFAKVKQGVQDMMRKRFEERNVGQIKTVYPTSYRFRQERNIPTFKDNV
Retrocopy LAEMFRSMDTIVGMLYNCSETVTFAKVKQGVQDMMRKRFEERNVGQIKTVYPTSYRFRQERNIPTFKDNV

Parental  KRSDYQLTIEPLLDQEVGNVAPQLTASRLLQRRQVFSQNLVERVREHHRVFLASLNPPMVVPEDRLTRWH
          KRSDYQLTI.PLLDQEVGNVAPQLTASRLLQR.QVFSQNLVERVR.HHRVFLASLNPPMVVPEDRLTRWH
Retrocopy KRSDYQLTI*PLLDQEVGNVAPQLTASRLLQRQQVFSQNLVERVRDHHRVFLASLNPPMVVPEDRLTRWH

Parental  PRFNVDEVPDIEPAELPQPPTTETLATAQEVLARARSLMSPRMEKALNDLALRTAVPSSPVSSSPVLPAT
          PRFNVDEVPDIEPAELPQPPTTETLATAQEVLARARSLMSPRMEKALNDL.LRTAVPSSPVSSSPVLPAT
Retrocopy PRFNVDEVPDIEPAELPQPPTTETLATAQEVLARARSLMSPRMEKALNDLVLRTAVPSSPVSSSPVLPAT

Parental  PPATPPALLKGVSQDLLERIRAKEVQKQLAQMTRCPEQEQRLQRLERLPELARVLRSIFVSERKPALTME
          PPATPPA.LKGVSQDLLERIRAKEVQKQLAQMTRCPEQEQRLQRLERLPELARVLRSIFVSERKPALTME
Retrocopy PPATPPAPLKGVSQDLLERIRAKEVQKQLAQMTRCPEQEQRLQRLERLPELARVLRSIFVSERKPALTME

Parental  VACARMVGSYRVAMSSGEMEKHVQLLSELLPDWLSLHRIRTDTYVKLDKAADLASVTAQLARLARAEEML
          VACARMVGSY.VAMSSGEMEKHVQLLSELLPDWLSLHRIRTDTYVKLDKAADLASVTAQLARLARAEEML
Retrocopy VACARMVGSYHVAMSSGEMEKHVQLLSELLPDWLSLHRIRTDTYVKLDKAADLASVTAQLARLARAEEML

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_774 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 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Myotis lucifugus	ENSMLUG00000003204	1 retrocopy	retro_mluc_774 ,
Tursiops truncatus	ENSTTRG00000004567	1 retrocopy	retro_ttru_1704,