RetrogeneDB ID: retro_mluc_2440

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL430401:73258..74272(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSMLUG00000016343
• Aliases: None
• Description: None

Sequence

>retro_mluc_2440
GTTCCTTTTGGTTCCAAGTCCAAAATGGCAACACTCAAGGATCAGCTGATCATGAATCTTCTTAAGGAAAAACAGAGCCC
CCAGAATAAGATTACCGTTGTTGGGGTTGGTGCTGTTGGCATGGCTTGTGCCATCAGTATCTTAATGAAGGACTTGGCAG
ATGAACTTGCTCTTGTTGATGTCATGGAAGACAAATTAAAGGGAGAAATGATGGATCTCCAACTTGGCAGCCTTTTCCTT
AAAACACAAAAAATTGTCTCTGGCAAAGACTATAGTGTGACTGCAAACTCCAAGCTGGTTATTATCACAGCTGGGGCACG
TCAACAAGAGGGAGAGAGCTGCCTTAATTTGGTCCAGCGTAACATGAACATCTTTAAATTCATCATTCCTAATGTTGTAA
AATACAGTCCCAACTGCAAATTGCATGTTGTTTCTAATCCAGTGGATATCTTGACCTATGTGGCTTGGAAGTTAAGTGGC
TTTCCCAAAAACCGTGTTATTGGAAGTGGTTGCAACCTGGATTCAGCCCGTTTCTGATACCTGATGGAAGAGAGGCTGGG
AGTTCACCCATTAAGCTGTCATAGGTGGGTCCTTGGGGAGCATGGAGACTCTAGTGTGCCTGTATGGAGTGGAGTGAATG
TTGCTTGTGTCTCCCTAAAGAATCTGCACCCTGATTTAGGCACTGATGCAGAACAGTGGAAACAAGTTCACCAACAGGTG
GTTGACAGTGCCTACGAGGTAATCAAACCGAAAGGCTATACATCCTGGGCCATTGGCCTATCTGTGGCTGATTTAGCAGA
AAGTATGATGAAGAATCTTAGGCGGGTGCATCCAATTTCCACCATGATTAAGGGTCTCTATGGAATAAAGGACGATGTCT
TCCTTAGTGTTCCTTGCATCTTGGGACAGAATGGAATCTCAGATGTTGTGAACGTGACCCTGACACCTGAGAAAGAGGCC
CATTTGAAGAAGAGTGCAGTCACACTGTGGGGAATCCAGAAAGAGCTGCAGTTT

Alignment

ORF - retro_mluc_2440 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 94.41 %
• Parental protein coverage: 94.18 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  VPFGSKSKMATLKDQLIVNLLKEEQSPQNKITVVGVGAVGMACAISILMKDLADELALVDVMEDKLKGEM
          VPFGSKSKMATLKDQLI.NLLKE.QSPQNKITVVGVGAVGMACAISILMKDLADELALVDVMEDKLKGEM
Retrocopy VPFGSKSKMATLKDQLIMNLLKEKQSPQNKITVVGVGAVGMACAISILMKDLADELALVDVMEDKLKGEM

Parental  MDLQHGSLFLKTPKIVSGKDYSVTANSKLVIITAGARQQEGESRLNLVQRNVNIFKFIIPNVVKYSPNCK
          MDLQ.GSLFLKT.KIVSGKDYSVTANSKLVIITAGARQQEGES.LNLVQRN.NIFKFIIPNVVKYSPNCK
Retrocopy MDLQLGSLFLKTQKIVSGKDYSVTANSKLVIITAGARQQEGESCLNLVQRNMNIFKFIIPNVVKYSPNCK

Parental  LLVVSNPVDILTYVAWKLSGFPKNRVIGSGCNLDSARFRYLMGERLGVHPLSCHGWVLGEHGDSSVPVWS
          L.VVSNPVDILTYVAWKLSGFPKNRVIGSGCNLDSARF.YLM.ERLGVHPLSCH.WVLGEHGDSSVPVWS
Retrocopy LHVVSNPVDILTYVAWKLSGFPKNRVIGSGCNLDSARF*YLMEERLGVHPLSCHRWVLGEHGDSSVPVWS

Parental  GVNVAGVSLKNLHPDLGTDADKEQWKQVHKQVVDSAYEVIKLKGYTSWAIGLSVADLAESMMKNLRRVHP
          GVNVA.VSLKNLHPDLGTDA..EQWKQVH.QVVDSAYEVIK.KGYTSWAIGLSVADLAESMMKNLRRVHP
Retrocopy GVNVACVSLKNLHPDLGTDA--EQWKQVHQQVVDSAYEVIKPKGYTSWAIGLSVADLAESMMKNLRRVHP

Parental  ISTMIKGLYGIKDDVFLSVPCILGQNGISDVVKVTLTPEEEARLKKSADTLWGIQKELQF
          ISTMIKGLYGIKDDVFLSVPCILGQNGISDVV.VTLTPE.EA.LKKSA.TLWGIQKELQF
Retrocopy ISTMIKGLYGIKDDVFLSVPCILGQNGISDVVNVTLTPEKEAHLKKSAVTLWGIQKELQF

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_2440 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 8 parental genes, and 31 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000009211	8 retrocopies	retro_cfam_1061, retro_cfam_1149, retro_cfam_1182, retro_cfam_1317, retro_cfam_1617, retro_cfam_1946, retro_cfam_2006, retro_cfam_309,
Dipodomys ordii	ENSDORG00000003524	2 retrocopies	retro_dord_439, retro_dord_449,
Felis catus	ENSFCAG00000015735	4 retrocopies	retro_fcat_102, retro_fcat_1839, retro_fcat_1919, retro_fcat_295,
Myotis lucifugus	ENSMLUG00000012155	1 retrocopy	retro_mluc_202,
Myotis lucifugus	ENSMLUG00000016343	4 retrocopies	retro_mluc_1716, retro_mluc_2031, retro_mluc_2440 , retro_mluc_365,
Mustela putorius furo	ENSMPUG00000013730	5 retrocopies	retro_mputfur_1256, retro_mputfur_133, retro_mputfur_1446, retro_mputfur_1476, retro_mputfur_1565,
Ictidomys tridecemlineatus	ENSSTOG00000000014	3 retrocopies	retro_itri_1396, retro_itri_1526, retro_itri_535,
Tarsius syrichta	ENSTSYG00000008062	4 retrocopies	retro_tsyr_1811, retro_tsyr_2064, retro_tsyr_2071, retro_tsyr_731,