RetrogeneDB ID: retro_mluc_1570

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL429864:645126..646653(+)
• Located in intron of: ENSMLUG00000029797

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSMLUG00000003117
• Aliases: None
• Description: Histone deacetylase [Source:UniProtKB/TrEMBL;Acc:G1NZE8]

Sequence

>retro_mluc_1570
CGGAGCCAGGGCGGCGGTGGCAGCAGCAGGAGGAGCCCAGAGGCGGCGGTGGCCAGGGAGCCCATGGCGTACAGTCAGGA
AGGCGGCAAAAAGAAAGTCTGCTACTACTACGATGGTGATATTGGAAACTATTACTATGGACAAGGCCATCCTATGAAAC
CTCATAGAATCTGCATGACCCATAACTTGCTGCTAAATTATGGTTTATATAGAAAAATGGAAATATATAGGCCCCATAAA
GCCACTGCTGAAGAAATGACAAAATACCACAGTGATGAGTACATCAAATTTCTACATTCAATAAGACCAGATAACATGTC
TGAGTATAGTAAGCAGATGCAGAGATTTAATGTTGGAGAAGATTGTCCAGTGTTTGATGGACTCTTTGAGTTTTGTCAGC
TCTCAACTGGTGGCTCAGTTGCTGGAGCTGTGAAGTTAAACCAACAACAAACTGATCTGGCTGTTAATTGGGCTGGAGGA
TTACATCATGCTAAGAAATCAGAAGCATCAGAGTTTTGTTATGTTAATGATATTGTGCTTGCCATCCTTGAATTACTAAA
GTATCACCAGAGAGTCTTATATATTGATATTGATATCCATCACGGTGCTGGTGTTGAAGAAGCTTTTTATACAACAGATC
ATGTAATGACTGTATCATTCCATAAATACGGGGAATACTTTCCTGGAACAGGAGACTTGAGGGATATTGGTGCAGGAAAA
GGCAAATACTATGCTGTCAATTTTCCAATGAGAGATGGTATAGATGATGAATCTTATGGGCAAATATTTAAGCCTATCAT
CTCAAAAGTGATGGAGATGTATCAACCTAGCGCTGTGGTGCTACAGTGTGGTGCAGACTCGCTATCTGGTGATAGACTTG
GTTGCTTCAATCTGACAGTCAAAGGTCATGCTAAATGTGTAGAAGTTGTAAAAACTTTCAATTTACCGTTACTGATGCTT
GGGGGAGGTGGATACACAATTCGTAACGTTGCTCGCTGTTGGACATATGAGACTGCAGTTGCCCTTGATTGTGAGATTCC
TAATGAATTGCCATATAATGATTACTTTGAGTATTTTGGACCAGACTTCAAACTGCATATTAGTCCTTCAAATATGACAA
ACCAGAACACTCCAGAATATATGGAAAAGATAAAACAGCGTTTATTTGAAAATTTACGCATGTTGCCTCATGCACCTGGT
GTCCAAATGCAAGCTATTCCAGAAGATGCTGTTCATGAAGACAGTGGAGATGAAGATGGAGAAGACTCAGACAAGAGAAT
TTCTATTCGAGCATCAGACAAACGGATAGCTTGTGATGAAGAATTCTCAGATTCAGAGGATGAAGGAGAAGGAGGTCGTA
GAAATGTGGCTGATCATAAGAAAGGAGCAAAGAAAGCTAGAATTGAGGAAGACAAGAAGGAAACAGAAGACAAAAAAGCT
GATGTTAAGGAAGAATATAAATCCAAGGATAATAGTGGTGAAAAAACAGATACCAAAGGAGCCAAATCAGAACAGCTCAG
CAACCCT

Alignment

ORF - retro_mluc_1570 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 97.06 %
• Parental protein coverage: 99.61 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  RGGGGGGSSRRRSPEAAAAGEPMAYSQGGGKKKVCYYYDGDIGNYYYGQGHPMKPHRIRMTHNLLLNYGL
          R..GGGGSSRR.SPEAA.A.EPMAYSQ.GGKKKVCYYYDGDIGNYYYGQGHPMKPHRI.MTHNLLLNYGL
Retrocopy RSQGGGGSSRR-SPEAAVAREPMAYSQEGGKKKVCYYYDGDIGNYYYGQGHPMKPHRICMTHNLLLNYGL

Parental  YRKMEIYRPHKATAEEMTKYHSDEYIKFLRSIRPDNMSEYSKQMQRFNVGEDCPVFDGLFEFCQLSTGGS
          YRKMEIYRPHKATAEEMTKYHSDEYIKFL.SIRPDNMSEYSKQMQRFNVGEDCPVFDGLFEFCQLSTGGS
Retrocopy YRKMEIYRPHKATAEEMTKYHSDEYIKFLHSIRPDNMSEYSKQMQRFNVGEDCPVFDGLFEFCQLSTGGS

Parental  VAGAVKLNRQQTDMAVNWAGGLHHAKKSEASGFCYVNDIVLAILELLKYHQRVLYIDIDIHHGDGVEEAF
          VAGAVKLN.QQTD.AVNWAGGLHHAKKSEAS.FCYVNDIVLAILELLKYHQRVLYIDIDIHHG.GVEEAF
Retrocopy VAGAVKLNQQQTDLAVNWAGGLHHAKKSEASEFCYVNDIVLAILELLKYHQRVLYIDIDIHHGAGVEEAF

Parental  YTTDRVMTVSFHKYGEYFPGTGDLRDIGAGKGKYYAVNFPMRDGIDDESYGQIFKPIISKVMEMYQPSAV
          YTTD.VMTVSFHKYGEYFPGTGDLRDIGAGKGKYYAVNFPMRDGIDDESYGQIFKPIISKVMEMYQPSAV
Retrocopy YTTDHVMTVSFHKYGEYFPGTGDLRDIGAGKGKYYAVNFPMRDGIDDESYGQIFKPIISKVMEMYQPSAV

Parental  VLQCGADSLSGDRLGCFNLTVKGHAKCVEVVKTFNLPLLMLGGGGYTIRNVARCWTYETAVALDCEIPNE
          VLQCGADSLSGDRLGCFNLTVKGHAKCVEVVKTFNLPLLMLGGGGYTIRNVARCWTYETAVALDCEIPNE
Retrocopy VLQCGADSLSGDRLGCFNLTVKGHAKCVEVVKTFNLPLLMLGGGGYTIRNVARCWTYETAVALDCEIPNE

Parental  LPYNDYFEYFGPDFKLHISPSNMTNQNTPEYMEKIKQRLFENLRMLPHAPGVQMQAIPEDAVHEDSGDED
          LPYNDYFEYFGPDFKLHISPSNMTNQNTPEYMEKIKQRLFENLRMLPHAPGVQMQAIPEDAVHEDSGDED
Retrocopy LPYNDYFEYFGPDFKLHISPSNMTNQNTPEYMEKIKQRLFENLRMLPHAPGVQMQAIPEDAVHEDSGDED

Parental  GEDPDKRISIRASDKRIACDEEFSDSEDEGEGGRRNVADHKKGAKKARIEEDKKETEDKKADVKEEDKSK
          GED.DKRISIRASDKRIACDEEFSDSEDEGEGGRRNVADHKKGAKKARIEEDKKETEDKKADVKEE.KSK
Retrocopy GEDSDKRISIRASDKRIACDEEFSDSEDEGEGGRRNVADHKKGAKKARIEEDKKETEDKKADVKEEYKSK

Parental  DNSGEKTDTKGAKSEQLSNP
          DNSGEKTDTKGAKSEQLSNP
Retrocopy DNSGEKTDTKGAKSEQLSNP

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_1570 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 12 parental genes, and 18 retrocopies.

Species	Parental gene accession	Retrocopies number
Ciona intestinalis	ENSCING00000002649	1 retrocopy	retro_cint_18,
Echinops telfairi	ENSETEG00000008468	1 retrocopy	retro_etel_488,
Myotis lucifugus	ENSMLUG00000003117	4 retrocopies	retro_mluc_1570 , retro_mluc_225, retro_mluc_2548, retro_mluc_935,
Myotis lucifugus	ENSMLUG00000008662	1 retrocopy	retro_mluc_642,
Myotis lucifugus	ENSMLUG00000013837	1 retrocopy	retro_mluc_283,
Monodelphis domestica	ENSMODG00000017860	1 retrocopy	retro_mdom_597,
Ornithorhynchus anatinus	ENSOANG00000003631	1 retrocopy	retro_oana_79,
Pan troglodytes	ENSPTRG00000018519	1 retrocopy	retro_ptro_69,
Sorex araneus	ENSSARG00000000354	1 retrocopy	retro_sara_651,
Ictidomys tridecemlineatus	ENSSTOG00000012779	1 retrocopy	retro_itri_374,
Tarsius syrichta	ENSTSYG00000009363	4 retrocopies	retro_tsyr_1337, retro_tsyr_1355, retro_tsyr_681, retro_tsyr_765,
Tursiops truncatus	ENSTTRG00000015043	1 retrocopy	retro_ttru_462,