RetrogeneDB ID: retro_mluc_2536

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL430783:44721..46767(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: THOC5
• Ensembl ID: ENSMLUG00000012135
• Aliases: None
• Description: None

Sequence

>retro_mluc_2536
ATGTCATCAGAGTTGAGCAAGAAGAGGAAGTGAGAGGAGATTCCAAGTGATGGACCTCCAGCGGAAGGGAAGCAGAATCG
TTCTGACCCCGAGCAGGAAGGCAAATACTACAGTGAGGAGGCTGAGGTGGACCTGGGGGACCCTGGAAGAGACTATGAGC
TGTACAAGTACACGTGCCAGGAGTTGCAGCGACTCATGGCCGAGATCCAGGGCCTGAAGAGCAGGGGAGGCAAGGATGCG
GCAGTTGAGATTGAAGATCGCAGGATCCTGGGCTGTGTTCATTTCATGACTCTAAAGAAGCTTAACCGATTAGCCCACAT
CAGGGTGAAGAAAGGAGGAGATCAGACCCATGAGGCCAAGCAGAAAGTAGACGCCTGTCACCTGCAGCTCCAGAACCTGT
TGTATGAGCTGATGCATCTGCAGAAGGAGATCACTACATGTCCGGAGTTCAAGTGAAAGCATGAAGAAATTGATCTGGTC
AGTGTAGAGGAGTTTTATCAAGAGGCTCCTCCAGATATCAGCAAGGCTGAGATCACCATGGGAGACCCTCACCAGCAAAC
CCTTGCACATCTGGATTGGGAGTTGGAGCAGCGGAAAAGGTTGGCGGAGAAGTACCGAGAGTCCCTCTCCAACAAGGAGA
AGATCCTTAAGGAGATTGAAGTGAAGAAGAAATACCTGAGCAGCCTCCAGCCTCTCCTGAACAGCATCATGCAGGCTTCC
CTCCTGGTGCAAGAGTACCTGTTCATGCCTTTCGACCAGGCTCACAAACAGTATGAGGCGGCCAGACACCTGCCGCCTCC
CCTCTATGTCCTCTTTGTCCAGGCCACTGCGTATGGGCAGGCCTGTGATAAAACACTATCTGTGGCGATCGAAGGCAGTG
TGGATGAAGCCAAGGCCCTGTTTAAACCTCACGAGGAATCCCAAGATGACCAGAGCGACTCGGATGCCGAGGAAGAGCAG
ACCACGGAACGCCGGCGACCCACACTGGGAGTCCAGTTGGATGACACACGCAAGGAGATGCTGAAGAGGCACCCGCTGTC
CGTCATGCTGGACCTGAAGTGCAAAGATGACAGTGTGCTTCACCTGACCTTTTCCTATCTCATGAACCTCAATATCATGA
CAGTAAAAGGCAAAGTGACAACTGCCACGGAGCTGATCACCCCCATCAGTGCAAGTGACTTGCTGTCTCCTGACTCAGTT
CTGAGCTGTCTGTATCCTGGGGATCATGGAAAGAAAACGCCAAATCGAGCCAATCAGTACCAGTTTGATAAAGTGGTCAT
CCTGACTTTGAGAGGCTACATCCTTGATTTAGGACACCCCTACTTGTGGGTACAGAAGCTGGGTGGCCTCCACTTCCCTA
AAGAGCAGCCCCAGCCTAGGGTGATTGCTGACCACTTGCTGAGCTCCAGTCACATGGAGACCACCATGAAACTGCTAAAG
ACCAGAGTGCAGTCCCGCCTGGCCCTCCACAAACAGTTCACGTCCCTGGAATCCGGCATTGTACCAGTTACTAGTGATTG
CCACTACCTCTTCCCTGCAAAGGTTGTCTCTCGCCTGGTGAAGTGGGTGACGATTGCCCATGAGGATTACGTGGAGCTGC
ATTTCACCAAAGACATTGTGGAGGCAGGACTGGCTGCGGACACCAATCTCTATTACATGGCACTCGTGGAAAGGGCCACA
GCCAAACTCCAGGCAGCTGTGGTGCTGAACCCTGGCTACTCCTCCATCCCACCCATTTTCCAGCTCTGTCTGAACTGGAA
AGGGGAGAAAACCAACAGCAATGATGACAATATTCGGGCCATGGAGAGTGAGGTCAACGTGTGCTACGAGGAGCTGTATG
GGCCCTGGCCCAGCCATCAGCTTTTGACTAATCAGCTGTAGCGCCTGTGCGTGCTACTAGACATCTACCTGGAGACCGAG
ATCCACGATGACAGCATGGAGGGGCCCAAGGAGTTTCCCCAGGAGAAGACGTGTCTGCGGCTTTTCAGGGGTCCCAGCAG
GCTGAAGCCGTTTAAATATAACCATCCTCAAGGATTCTTCAGCCAT

Alignment

ORF - retro_mluc_2536 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 92.68 %
• Parental protein coverage: 99.85 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MSSESSKKRKPKVIRSDGAPAEGKRSRSDPEQEGKYYSEEAEVDLRDPGRDYELYKYTCQELQRLMAEIQ
          MSSE.SKKRK...I.SDG.PAEGK..RSDPEQEGKYYSEEAEVDL.DPGRDYELYKYTCQELQRLMAEIQ
Retrocopy MSSELSKKRK*EEIPSDGPPAEGKQNRSDPEQEGKYYSEEAEVDLGDPGRDYELYKYTCQELQRLMAEIQ

Parental  DLKSRGGKDAAVEIEDRRILSCVHFMTLKKLNRLAHIRLKKGRDQTHEAKQKVDAYHLQLQNLLYEVMHL
          .LKSRGGKDAAVEIEDRRIL.CVHFMTLKKLNRLAHIR.KKG.DQTHEAKQKVDA.HLQLQNLLYE.MHL
Retrocopy GLKSRGGKDAAVEIEDRRILGCVHFMTLKKLNRLAHIRVKKGGDQTHEAKQKVDACHLQLQNLLYELMHL

Parental  QKEITKCLEFKSKHEEIDLVSVEEFYQEAPPDISKAEITMGDPHQQTLARLDWELEQRKRLAEKYRESLS
          QKEIT.C.EFK.KHEEIDLVSVEEFYQEAPPDISKAEITMGDPHQQTLA.LDWELEQRKRLAEKYRESLS
Retrocopy QKEITTCPEFK*KHEEIDLVSVEEFYQEAPPDISKAEITMGDPHQQTLAHLDWELEQRKRLAEKYRESLS

Parental  NKEKILKEIEVKKEYLSSLQPRLNSIMQQASLPVQEYLFMPFDQAHKQYETARHLPPPLYVLFVQATAYG
          NKEKILKEIEVKK.YLSSLQP.LNSIMQ.ASL.VQEYLFMPFDQAHKQYE.ARHLPPPLYVLFVQATAYG
Retrocopy NKEKILKEIEVKKKYLSSLQPLLNSIMQ-ASLLVQEYLFMPFDQAHKQYEAARHLPPPLYVLFVQATAYG

Parental  QACDKTLSVAIEGSVDEAKALFKPHEESQDDESDSDAEEEQTTKRRRPTLGVQLDDKRKEMLKRHPLSVM
          QACDKTLSVAIEGSVDEAKALFKPHEESQDD.SDSDAEEEQTT.RRRPTLGVQLDD.RKEMLKRHPLSVM
Retrocopy QACDKTLSVAIEGSVDEAKALFKPHEESQDDQSDSDAEEEQTTERRRPTLGVQLDDTRKEMLKRHPLSVM

Parental  LDLKCKDDSVLHLTFYYLMNLNIMTVKARVTTATELITPISAGDLLSPDSVLSCLYPGDHGKKTPNPANQ
          LDLKCKDDSVLHLTF.YLMNLNIMTVK..VTTATELITPISA.DLLSPDSVLSCLYPGDHGKKTPN.ANQ
Retrocopy LDLKCKDDSVLHLTFSYLMNLNIMTVKGKVTTATELITPISASDLLSPDSVLSCLYPGDHGKKTPNRANQ

Parental  YQFDKVGILTLRDYVLDLGHPYLWVQKLGGLHFPKEQPQPTVIADHSLSSSHMETTMKLLKTRVQSRLAL
          YQFDKV.ILTLR.Y.LDLGHPYLWVQKLGGLHFPKEQPQP.VIADH.LSSSHMETTMKLLKTRVQSRLAL
Retrocopy YQFDKVVILTLRGYILDLGHPYLWVQKLGGLHFPKEQPQPRVIADHLLSSSHMETTMKLLKTRVQSRLAL

Parental  HKQFASLEHGIVPVTSDCHYLFPAKVVSRLVKWVTIAHEDYVELHFTKDIVEAGLAGDTNLYYMALVERG
          HKQF.SLE.GIVPVTSDCHYLFPAKVVSRLVKWVTIAHEDYVELHFTKDIVEAGLA.DTNLYYMALVER.
Retrocopy HKQFTSLESGIVPVTSDCHYLFPAKVVSRLVKWVTIAHEDYVELHFTKDIVEAGLAADTNLYYMALVERA

Parental  TAKLQAAVVLNPGYSSIPPIFQLCLNWKGEKTNSNDDNIRAMESEVNVCYKELCGPRPGHQLLTNQLQRL
          TAKLQAAVVLNPGYSSIPPIFQLCLNWKGEKTNSNDDNIRAMESEVNVCY.EL.GP.P.HQLLTNQL.RL
Retrocopy TAKLQAAVVLNPGYSSIPPIFQLCLNWKGEKTNSNDDNIRAMESEVNVCYEELYGPWPSHQLLTNQL*RL

Parental  CVLLDVYLETEIHDDSVEGPKEFPQEKMCLRLFRGPSRMKPFKYNHPQGFFSH
          CVLLD.YLETEIHDDS.EGPKEFPQEK.CLRLFRGPSR.KPFKYNHPQGFFSH
Retrocopy CVLLDIYLETEIHDDSMEGPKEFPQEKTCLRLFRGPSRLKPFKYNHPQGFFSH

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_2536 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 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000019894	2 retrocopies	retro_cjac_1965, retro_cjac_2647,
Cavia porcellus	ENSCPOG00000010974	1 retrocopy	retro_cpor_1508,
Felis catus	ENSFCAG00000004247	1 retrocopy	retro_fcat_1394,
Myotis lucifugus	ENSMLUG00000012135	1 retrocopy	retro_mluc_2536 ,
Tursiops truncatus	ENSTTRG00000000542	1 retrocopy	retro_ttru_1315,