RetrogeneDB ID: retro_mluc_2443

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL430417:306214..308210(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: AP2B1
• Ensembl ID: ENSMLUG00000002837
• Aliases: None
• Description: None

Sequence

>retro_mluc_2443
ATGACTGACTCCAGGTACTTCACAACCAATAAAAAAGGAGAAATCTTTGAATTAAAGGCTGAACTCAACAATGAAAAGAA
AGAAAAGCGGAAGGAGGCTGTGAAGAAAGTGATTGCTGCTATGACTGTGGGGAAGGATGTCAGCTCTCTCTTTCCAGATG
TAGTGAACTGTATGCAGACTGACAACCTGGAACTAAAGAAGCTGGTGTATCTCTACTTGATGAACTATGCCAAGAGTCAG
CCAGACATGGCCATTATGGCTGTCAACAGCTTTGTGAAGGACTGTGAAGATCCCAATCCTCTGATTTGGGCCTTGGCAGT
TAGAACCATGGGATGCATCCGAGTGGACAAGATCGCATAATATCTCTGTGAGCCCCTCCGAAAGTGCTTGAAGGATGAAG
ATCCCTATGTTCGGAAAACAGCAGCAGTCTGTGTGGCAAAACTCCATGATATCAATGCCCAAATGGTGGAAGATCAGGGA
TTTCTGGATTCTCTGTGGGATCTCATAGCAGATTCAAATCCAATGGTGGTGGCTAATGCTGTAGCAGCATTATCTGAAAT
CAGTGAATCTCACCCAAACAGCAACTTACTCGATCTGAACCCACAGAACATTAATAAGCTGCTGACAGCCCTGAATGAGT
GTACTGAATGGGGCCAGATTTTCATCCTGGACTGCCTGTCCAATTACAACCCTAAAGATGACCGGGAGGCTCAGAGCATC
TGTGAGCGGGTAACTCCCCGGCTATCTCATGCCAACTCAGCAGTGGTGCTTTCAGCAGTAAAAGTCCTAATGAAATTTCC
AGAGTTGTTACCGAAGGACTCTGACTACTATAATATGCTGCTGAAGAAGTTGGCCCCTCCACTTGTCACTTTGCTGTCTG
GGGAGCCAGAGGTGCAGTATGTCGCCCTGAGGAACATCAACCTAATTGTTCAAAAAAGGCCTGAAATCTTAAAGCAGGAA
ATCAAAGTCTCCTTTGTGAAGTATAATGATCCCATATATGTTAAACTAGAGAAGCTGGTCATCATGATTCGTTTGGCATC
TCAAGCCAATATTGCTCAGGTTCTGGCAGAGCTGAAGAAATATGCCACGGAGGTGGATGCTGACTTTGTTTGCAAAGCTG
TGCGGGCCATTGGACGGTGTGCCATCAAGGTGGAGCAATCTGCAGAACGTTGTGTGAGCACATTGCTTGATCTCATCCAA
ACCAAAGTAAATTATGTGGTCCAAGAGGCGAGAGTTGTCATCAGGGACATCTTCCGCAAGTATCCCAACAAGTATGAAAG
CATCATTGCCACTCTGTGTGAGAACTTACACTCGCTGGATGAGCCAGATGTGTGAGCAGCTATGATTTGGATTGTGGGCG
AATATGCTGAACGAATTGACAATGCAGATGAATTACTAGAGAGCTTCCTGGAGGGTTTTCATGATGAGAGCACCCAGGTG
CAGCTCACTCTGCTTACTGCCATAGTGAAGCTGTTTCTCAAGAAACCATCAGAAACACAGGAGCTGGTACAGCAGGTCTT
GAGTTTGGCAATACAGGATTCTGATAATCCTGACCTTTGAGATAGGGGCTATATTTATTGGCAGCTTCTCTCAACCGACC
CTGTCACAGCCAAAGAAGTAGTCTTGTCTGAGAAGCCACTGATCTCTGAGGAGACAGATCTTATTGAGCCAACTCTGCTG
GATGAGCTAATCTGCCACATTGGTTCTTTGGCCTCTGTGTACCACAAGCCTCCCAATGCCTTTTGTGGAAGGAAGTCACG
GAATCCATCGCAAACACTTGCCAATACATCATGGGAGCACTGATGCAGGTGACAGCCCTGTTGGCACCGCCACTGCCACC
AACCTGGAACAGACTCATGTTATTCCCTCTCAAGGTGACCTTCTAGGGGACCTTTTAAACCTTGATCTCGGTCCACCAGT
CAATGTGCCACAGGTATCCTCCATGCAGATGGGAGCAGTGGATCTCTTGGGAGGAGGACTAGATAGTCTGGTGGGA

Alignment

ORF - retro_mluc_2443 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 94.44 %
• Parental protein coverage: 69.93 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MTDSKYFTTNKKEFIFEKNGVIQNKKREKKKEALYKIAAAMTVGKDVSSLFPDVVNCMQTDNLELKKLVY
          MTDS.YFTTNKK..IFE......N.K.EK.KEA..K..AAMTVGKDVSSLFPDVVNCMQTDNLELKKLVY
Retrocopy MTDSRYFTTNKKGEIFELKAELNNEKKEKRKEAVKKVIAAMTVGKDVSSLFPDVVNCMQTDNLELKKLVY

Parental  LYLMNYAKSQPDMAIMAVNSFVKDCEDPNPLIRALAVRTMGCIRVDKITEYLCEPLRKCLKDEDPYVRKT
          LYLMNYAKSQPDMAIMAVNSFVKDCEDPNPLI.ALAVRTMGCIRVDKI..YLCEPLRKCLKDEDPYVRKT
Retrocopy LYLMNYAKSQPDMAIMAVNSFVKDCEDPNPLIWALAVRTMGCIRVDKIA*YLCEPLRKCLKDEDPYVRKT

Parental  AAVCVAKLHDINAQMVEDQGFLDSLRDLIADSNPMVVANAVAALSEISESHPNSNLLDLNPQNINKLLTA
          AAVCVAKLHDINAQMVEDQGFLDSL.DLIADSNPMVVANAVAALSEISESHPNSNLLDLNPQNINKLLTA
Retrocopy AAVCVAKLHDINAQMVEDQGFLDSLWDLIADSNPMVVANAVAALSEISESHPNSNLLDLNPQNINKLLTA

Parental  LNECTEWGQIFILDCLSNYNPKDDREAQSICERVTPRLSHANSAVVLSAVKVLMKFLELLPKDSDYYNML
          LNECTEWGQIFILDCLSNYNPKDDREAQSICERVTPRLSHANSAVVLSAVKVLMKF.ELLPKDSDYYNML
Retrocopy LNECTEWGQIFILDCLSNYNPKDDREAQSICERVTPRLSHANSAVVLSAVKVLMKFPELLPKDSDYYNML

Parental  LKKLAPPLVTLLSGEPEVQYVALRNINLIVQKRPEILKQEIKVFFVKYNDPIYVKLEKLDIMIRLASQAN
          LKKLAPPLVTLLSGEPEVQYVALRNINLIVQKRPEILKQEIKV.FVKYNDPIYVKLEKL.IMIRLASQAN
Retrocopy LKKLAPPLVTLLSGEPEVQYVALRNINLIVQKRPEILKQEIKVSFVKYNDPIYVKLEKLVIMIRLASQAN

Parental  IAQVLAELKEYATEVDVDFVRKAVRAIGRCAIKVEQSAERCVSTLLDLIQTKVNYVVQEAIVVIRDIFRK
          IAQVLAELK.YATEVD.DFV.KAVRAIGRCAIKVEQSAERCVSTLLDLIQTKVNYVVQEA.VVIRDIFRK
Retrocopy IAQVLAELKKYATEVDADFVCKAVRAIGRCAIKVEQSAERCVSTLLDLIQTKVNYVVQEARVVIRDIFRK

Parental  YPNKYESIIATLCENLDSLDEPDARAAMIWIVGEYAERIDNADELLESFLEGFHDESTQVQLTLLTAIVK
          YPNKYESIIATLCENL.SLDEPD..AAMIWIVGEYAERIDNADELLESFLEGFHDESTQVQLTLLTAIVK
Retrocopy YPNKYESIIATLCENLHSLDEPDV*AAMIWIVGEYAERIDNADELLESFLEGFHDESTQVQLTLLTAIVK

Parental  LFLKKPSETQELVQQVLSLATQDSDNPDLRDRGYIYWRLLSTDPVTAKEVVLSEKPLISEETDLIEPTLL
          LFLKKPSETQELVQQVLSLA.QDSDNPDL.DRGYIYW.LLSTDPVTAKEVVLSEKPLISEETDLIEPTLL
Retrocopy LFLKKPSETQELVQQVLSLAIQDSDNPDL*DRGYIYWQLLSTDPVTAKEVVLSEKPLISEETDLIEPTLL

Parental  DELICHIGSLASVYHKPPNA-FVEGSHGIHRKHLPIHHGSTDAGDSPVGTATATNLEQTQVIPSQGDLLG
          DELICHIGSLASVYHKPPNA.FVEGSHGIHRKHLPIHHGSTDAGDSPVGTATATNLEQT.VIPSQGDLLG
Retrocopy DELICHIGSLASVYHKPPNA>FVEGSHGIHRKHLPIHHGSTDAGDSPVGTATATNLEQTHVIPSQGDLLG

Parental  DLLNLDLGPPVNVPQVSSMQVGAVDLLGGGLDSLLG
          DLLNLDLGPPVNVPQVSSMQ.GAVDLLGGGLDSL.G
Retrocopy DLLNLDLGPPVNVPQVSSMQMGAVDLLGGGLDSLVG

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_2443 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 13 parental genes, and 15 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000020316	1 retrocopy	retro_btau_1675,
Choloepus hoffmanni	ENSCHOG00000010864	1 retrocopy	retro_chof_2310,
Callithrix jacchus	ENSCJAG00000014853	1 retrocopy	retro_cjac_1850,
Gorilla gorilla	ENSGGOG00000015593	1 retrocopy	retro_ggor_3044,
Loxodonta africana	ENSLAFG00000015777	1 retrocopy	retro_lafr_446,
Myotis lucifugus	ENSMLUG00000002837	1 retrocopy	retro_mluc_2443 ,
Myotis lucifugus	ENSMLUG00000007458	1 retrocopy	retro_mluc_398,
Mustela putorius furo	ENSMPUG00000014910	1 retrocopy	retro_mputfur_704,
Mus musculus	ENSMUSG00000035152	1 retrocopy	retro_mmus_2503,
Nomascus leucogenys	ENSNLEG00000013939	2 retrocopies	retro_nleu_1925, retro_nleu_2554,
Pongo abelii	ENSPPYG00000008188	1 retrocopy	retro_pabe_3793,
Pan troglodytes	ENSPTRG00000009021	1 retrocopy	retro_ptro_3248,
Rattus norvegicus	ENSRNOG00000009988	2 retrocopies	retro_rnor_1267, retro_rnor_574,