RetrogeneDB ID: retro_mluc_2161

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL430065:1457393..1459286(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: NCOA4
• Ensembl ID: ENSMLUG00000000619
• Aliases: None
• Description: None

Sequence

>retro_mluc_2161
TATGGGGTGGAGTTTGTAGTCGGAACAGGGAAAATGAGTACCTCACAGGACCAGAATGGCTTCAGTAAGAGAGAACCCCT
TCTGAGGTGTCCTGATGCACAGAAGGACTTGGAGCTTGCCATTGGTGGAGTTCTCCGGGCTGAACAGCAAATTAAAGATA
ACTTGCGAGAGATCAAAGCCCAGATTCACAGCTGCATAAGCCGTCACTTGGAATGCCTTTGAAGCCGGGAGGTGTAGTTG
TATGAAGAGGTAGATCTCATCTATCTGCTTAAAGAGGAGACACTTCAGCAGCAGGCCCAGCAGCTCTACTGGTTACTGGG
CCAGTTCAATTGTCTTATTCATCAACTGGAGTGCTCCCAAATCAAAGATCTAGCCAATCAAGTGTCCGTGTGCCTGGAGA
GACTGGGCAATTTGACCCTCAAACCCGAAGATTCGACTGTCCTATTCTTTGAAGCAGACACAACTGCTCTGCGCCAGGCC
ATCACCATGTTTGGGTCCCTCAAGACCATCCAAATTCCTGAGCAGTTGATGGCTCATGCTAGCTCATCCAATATTGGGCC
CTTCATGGAGAAAAGAGGATATATCCCATTGCTAGAGCAGCAGAAGTCAGCATCCAGCACCACAGCTGTCCATCTCAGTG
AATGGCTCCTTGGAAGCAAACCAACCAATGGTCATCCAGCTCCTTACACACCCAGCACCAATCTCCAGGACTGGCTCACC
CAAAAGCAGACCTTTGAGAGTAGTCAGACTTCCTCCAGAACCTGCAGTGTCTTTAGTAATGTCTGGGGCAACCTAAAGGG
CTTGGAAAACTGGCTCCACAAGAGCCAACAAGAAGTTATTCCTGAAAAACCAAATTACGAAAAGGGTAACAGCTGTTCTA
CCACCAGTTCATGCTCCATTGATACTGAAAAGGTTGAAGATCCAGAGCTTCTTGATCAAGATGAGATGAGTCTTTCTGAT
TGGCTGTTGACTGACCAGGACTCTCCAAAGCTGGAGAAGCCTGGGAATGGCAGCTGTGAAACCAGTGAGAAGTTTAAGCG
CCTGTTCCAGGTGTTCCATGAGTCCTACAATGTGAATGATTGGCTTGTCAAGTCCGATTCCTGTACCAATTGTCAGGGCA
ACCAGCCCAAAGGTGTGGAGATTGAAAACCCGGGCAATCTGAAGTGCCTGAATGACCACAGTGAGGCCAAGAAAACCTTG
TCCACTCCCAGCATGGTTATTGAGGATTGGCTTGTCCGGAACCATCAGGACCCATATAAAGTAGAGGAGGTCTGCAAAGC
CAATGAGCCCTGTACAAGCTTTGCAGAGTGTGTGTGTGATGAAAATTGTGAGAAGGAAGCCATGTCTAAGTGGCTGCTGG
AGAAAGAAGGAAAGGATAAAAATGGTATGCCTGTGGAACCAAAATTTGAATCAGAGAAGCATCCAGATTCCCTGAATATG
TGGCTCTGTCCTTCCAGGAGAGAGGCAGCAGAACAAGCTAAAATATCAAAGGCAATGGCTGCTTCCAAAATTGCTGATTC
CTTCAAAATGATAAGGAACAGTTCCTTGTCAGAGTGGCTCATCATACCCTCATGCAAAGAAGCACATCCCAAAGATAGAG
CTGGCAAACAAAAGCTTATGAGTCCGGTGGCCACTTCCTGGTGTCCCTTTAATACAGCTGACTGGGTCTTGCCAGGAAAG
AAGACAGGAAACCTCAGCCAGTTATCCTCAGGAGAAGACAAGTGGCTACTACGAAAGAAGGCCAAGGAAGTATTACTTAA
TTCACCCCTGCAGGAGGAACATAACTTCCCCCCAGAACATAACTATGCCCTCCCAGCAGTTTGTGATCTCTTTGCCTGTA
TGCAGCTTAAAGTTGATAAAGAAAAGTGGCTATATCGAACTCCTCTACAGATG

Alignment

ORF - retro_mluc_2161 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 95.88 %
• Parental protein coverage: 99.06 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  FRVFFFEGTVKMSTSQDQNGSSKREPLLRCRDAQRDLELAIGGVLRAEQQIKDNLREIKAQIHSCISRHL
          ..V.F..GT.KMSTSQDQNG.SKREPLLRC.DAQ.DLELAIGGVLRAEQQIKDNLREIKAQIHSCISRHL
Retrocopy YGVEFVVGTGKMSTSQDQNGFSKREPLLRCPDAQKDLELAIGGVLRAEQQIKDNLREIKAQIHSCISRHL

Parental  ECLRSREVWLYEQVDLIYQLKEETLQQQAQQLYWLLGQFNCLIHQLECTQNKDLANQVSVCLERLGNLTL
          ECL.SREV.LYE.VDLIY.LKEETLQQQAQQLYWLLGQFNCLIHQLEC.Q.KDLANQVSVCLERLGNLTL
Retrocopy ECL*SREV*LYEEVDLIYLLKEETLQQQAQQLYWLLGQFNCLIHQLECSQIKDLANQVSVCLERLGNLTL

Parental  KPEDSTVLLFEADTTALRQTITTFGSLKTIQIPEQLMAHASSSNIGPFMEKRGFIPLLEQ-KSASSTTAV
          KPEDSTVL.FEADTTALRQ.IT.FGSLKTIQIPEQLMAHASSSNIGPFMEKRG.IPLLEQ.KSASSTTAV
Retrocopy KPEDSTVLFFEADTTALRQAITMFGSLKTIQIPEQLMAHASSSNIGPFMEKRGYIPLLEQQKSASSTTAV

Parental  PLSEWLLGSKPTNGHPAPYTPSTNLQDWLTQKQTFESSQTSSRTCSVFSNVWGNLKGLENWLHKSQQEVV
          .LSEWLLGSKPTNGHPAPYTPSTNLQDWLTQKQTFESSQTSSRTCSVFSNVWGNLKGLENWLHKSQQEV.
Retrocopy HLSEWLLGSKPTNGHPAPYTPSTNLQDWLTQKQTFESSQTSSRTCSVFSNVWGNLKGLENWLHKSQQEVI

Parental  PEKPNYEKGNSCSTTSSCSIDTDKVEDPELLDQDEMSLSDWLLTDQDSPKLEKPGNGSCETSEKFKRLFQ
          PEKPNYEKGNSCSTTSSCSIDT.KVEDPELLDQDEMSLSDWLLTDQDSPKLEKPGNGSCETSEKFKRLFQ
Retrocopy PEKPNYEKGNSCSTTSSCSIDTEKVEDPELLDQDEMSLSDWLLTDQDSPKLEKPGNGSCETSEKFKRLFQ

Parental  VFHESYNVNDWLVKSDSCTNCRGNQPKGVEIENLGNLKCLNDHSEAKKTLSTPSMVIEDWLVRNHQDPYK
          VFHESYNVNDWLVKSDSCTNC.GNQPKGVEIEN.GNLKCLNDHSEAKKTLSTPSMVIEDWLVRNHQDPYK
Retrocopy VFHESYNVNDWLVKSDSCTNCQGNQPKGVEIENPGNLKCLNDHSEAKKTLSTPSMVIEDWLVRNHQDPYK

Parental  VEEVCKANEPCTSFAECVCDENCEKEAMSKWLLEKEGKDKNGMPVEPKFESEKHPDSLNMWLCPSRREAA
          VEEVCKANEPCTSFAECVCDENCEKEAMSKWLLEKEGKDKNGMPVEPKFESEKHPDSLNMWLCPSRREAA
Retrocopy VEEVCKANEPCTSFAECVCDENCEKEAMSKWLLEKEGKDKNGMPVEPKFESEKHPDSLNMWLCPSRREAA

Parental  EQAKISKAMAASKIADSFKMIRNSSLSEWLIIPSCKEAHPKDRAGKQKLMSPVATSWCPFNTADWVLPGK
          EQAKISKAMAASKIADSFKMIRNSSLSEWLIIPSCKEAHPKDRAGKQKLMSPVATSWCPFNTADWVLPGK
Retrocopy EQAKISKAMAASKIADSFKMIRNSSLSEWLIIPSCKEAHPKDRAGKQKLMSPVATSWCPFNTADWVLPGK

Parental  KTGNLSQLSSGEDKWLLRKKAKEVLLNSPLQEEHNFPPEHNYALPAVCDLFACMQLKVDKEKWLYRTPLQ
          KTGNLSQLSSGEDKWLLRKKAKEVLLNSPLQEEHNFPPEHNYALPAVCDLFACMQLKVDKEKWLYRTPLQ
Retrocopy KTGNLSQLSSGEDKWLLRKKAKEVLLNSPLQEEHNFPPEHNYALPAVCDLFACMQLKVDKEKWLYRTPLQ

Parental  V
          .
Retrocopy M

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_2161 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 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000019565	1 retrocopy	retro_btau_1761,
Choloepus hoffmanni	ENSCHOG00000004343	1 retrocopy	retro_chof_2540,
Callithrix jacchus	ENSCJAG00000013352	1 retrocopy	retro_cjac_916,
Myotis lucifugus	ENSMLUG00000000619	1 retrocopy	retro_mluc_2161 ,
Mus musculus	ENSMUSG00000056234	1 retrocopy	retro_mmus_14,