RetrogeneDB ID: retro_mluc_283

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL429785:7881367..7882816(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMLUG00000028543
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSMLUG00000013837
• Aliases: None
• Description: Histone deacetylase [Source:UniProtKB/TrEMBL;Acc:G1PNQ7]

Sequence

>retro_mluc_283
ATGGCGCAGACTCAGGGCACCCGGAGGAAAGTATGTTACTACTACGACAATGGGGATGTTGGAAATTACTATTATGGACA
AGGCCACCCAATGAAACCTCACCGAATCCACATGACTCACAATTTGCTACGTAACTATGGTCTCTACCGAAAAATGAAAA
TCTATCGTCCTCACAAAGCCAATACTGAGGAGATGACCAAGTCTCACAGCGATGATTGCATGAAATTCTTGCGCTCCATC
CGCCCAGATAACATGTCTGAATACAGCAAGCAGATGCAGAGATTCAACGTTGGTGAAGACTGTCCGGTATCTGATGGCCT
GTTTGAGTTCTGTCAGTTATCTACTGGTGGCTCTGTGGCAAGTGCTGTGAAACTTAATAAGCAGCAGACTGACATCGCTG
TGAATTGGGCTGGGGGCCTGCACCATGCAAAGAAGTCTGAGGCATCTGGCTTCTGTTACGTCAACGATATCGTCTTGGCC
ATCCTGGAACTGCTAAAGTATCACCAGAGGGTGCTGTATATTGACATTGATATTCACCATGGCGATGGCGTGGAAGAGGC
CTTCTATACCACAGACCGGGTCATGACTGTATCCTTTCATAAATATGGAGAGTACTTCCCAGGAACTGCGGATCTACGGG
ATATTGGGGCTGGCAAAGGCAAGTATTATGCTGTTAACTACCCGCTTCGAGATGGGATTGATGACAAGTCCTATGAGGCC
ATTTTCAAGCCGGTCATAACCAAAGTGATGGTGATGTTTCAACCCAGTGCAGTCGTCTTACAGTGTTGCTCTGACTCCCT
GTCTGGGGATCGGTTAGGTTGCTTCAATCTGACCATCAAAGGGCATGCCAAGTGTGTGGAATTTGTGAAGAGCTTTAACC
TGCCTATGCTCATGCTGGCAGGAGGTGGCTACACCATTCGTCATGTTGCCCGATGCTGGAGATATGAAACACCTGTCGCC
CTGGACACAGAGATCCCTAATGAGCTTCCATACAACGACTACTTTGAATACTTTGGGCCAGATTTCAAACTTCACATCAG
TCCTTCCAATATGACTAACCAGAACACAAATGAGTACCTGGAGAAGATCAAACAGCGACTGTCTGAGAACCTGAGAATGC
GGCCCCATGCACCTGGGGTCCAAATGCAGGCGATTCCTGAGGACGCCATTCCAGAGAGTGGGGATGAGGATGAGGAAGAC
CCTGACAAGCGCATTTCGATCTGTTCCTCTGACAAACGAACTGCCTGTGAGGAAGAGTTCTCCGACTCTGATGAGGAGGG
AGAAGGTGGCCGCAAGAACTCTTCCAACTTCAAAAAAGCCAAGAGAGTCAAAACTGAGGATGAAAAAGAGAAAGACCCAG
AAGAGAAGAAAGAAGTCACAGAAGAGGAGAAAAGCAAGGAGGACAAGCAAGAGGCCAAAGGGGTTAAAGAGGAGGTCAAA
TTGGCCTGA

Alignment

ORF - retro_mluc_283 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 94.76 %
• Parental protein coverage: 97.54 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MAQTQGTRRKVCYYYD-GDVGNYYYGQGHPMKPHRIRMTHNLLLNYGLYRKMEIYRPHKANAEEMTKYHS
          MAQTQGTRRKVCYYYD.GDVGNYYYGQGHPMKPHRI.MTHNLL.NYGLYRKM.IYRPHKAN.EEMTK.HS
Retrocopy MAQTQGTRRKVCYYYDNGDVGNYYYGQGHPMKPHRIHMTHNLLRNYGLYRKMKIYRPHKANTEEMTKSHS

Parental  DDYIKFLRSIRPDNMSEYSKQMQRFNVGEDCPVFDGLFEFCQLSTGGSVGPASAVKLNKQQTDIAVNWAG
          DD..KFLRSIRPDNMSEYSKQMQRFNVGEDCPV.DGLFEFCQLSTGGSV..ASAVKLNKQQTDIAVNWAG
Retrocopy DDCMKFLRSIRPDNMSEYSKQMQRFNVGEDCPVSDGLFEFCQLSTGGSV--ASAVKLNKQQTDIAVNWAG

Parental  GLHHAKKSEASGFCYVNDIVLAILELLKYHQRVLYIDIDIHHGDGVEEAFYTTDRVMTVSFHKYGEYFPG
          GLHHAKKSEASGFCYVNDIVLAILELLKYHQRVLYIDIDIHHGDGVEEAFYTTDRVMTVSFHKYGEYFPG
Retrocopy GLHHAKKSEASGFCYVNDIVLAILELLKYHQRVLYIDIDIHHGDGVEEAFYTTDRVMTVSFHKYGEYFPG

Parental  TGDLRDIGAGKGKYYAVNYPLRDGIDDESYEAIFKPVISKVMEMFQPSAVVLQCGSDSLSGDRLGCFNLT
          T.DLRDIGAGKGKYYAVNYPLRDGIDD.SYEAIFKPVI.KVM.MFQPSAVVLQC.SDSLSGDRLGCFNLT
Retrocopy TADLRDIGAGKGKYYAVNYPLRDGIDDKSYEAIFKPVITKVMVMFQPSAVVLQCCSDSLSGDRLGCFNLT

Parental  IKGHAKCVEFVKSFNLPMLMLGGGGYTIRNVARCWTYETAVALDTEIPNELPYNDYFEYFGPDFKLHISP
          IKGHAKCVEFVKSFNLPMLML.GGGYTIR.VARCW.YET.VALDTEIPNELPYNDYFEYFGPDFKLHISP
Retrocopy IKGHAKCVEFVKSFNLPMLMLAGGGYTIRHVARCWRYETPVALDTEIPNELPYNDYFEYFGPDFKLHISP

Parental  SNMTNQNTNEYLEKIKQRLFENLRMLPHAPGVQMQAIPEDAIPEESGDEDEEDPDKRISICSSDKRIACE
          SNMTNQNTNEYLEKIKQRL.ENLRM.PHAPGVQMQAIPEDAIP.ESGDEDEEDPDKRISICSSDKR.ACE
Retrocopy SNMTNQNTNEYLEKIKQRLSENLRMRPHAPGVQMQAIPEDAIP-ESGDEDEEDPDKRISICSSDKRTACE

Parental  EEFSDSDEEGEGGRKNSSNFKKAKRVKTEDEKEKDPEEKKEVTEEEKTKEDKQEAKG
          EEFSDSDEEGEGGRKNSSNFKKAKRVKTEDEKEKDPEEKKEVTEEEK.KEDKQEAKG
Retrocopy EEFSDSDEEGEGGRKNSSNFKKAKRVKTEDEKEKDPEEKKEVTEEEKSKEDKQEAKG

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_283 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 16 parental genes, and 25 retrocopies.

Species	Parental gene accession	Retrocopies number
Ciona intestinalis	ENSCING00000002649	1 retrocopy	retro_cint_18,
Callithrix jacchus	ENSCJAG00000000970	2 retrocopies	retro_cjac_2490, retro_cjac_830,
Homo sapiens	ENSG00000116478	1 retrocopy	retro_hsap_826,
Gorilla gorilla	ENSGGOG00000011741	1 retrocopy	retro_ggor_676,
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 ,
Macaca mulatta	ENSMMUG00000009948	2 retrocopies	retro_mmul_1085, retro_mmul_2518,
Mus musculus	ENSMUSG00000028800	1 retrocopy	retro_mmus_153,
Nomascus leucogenys	ENSNLEG00000002473	1 retrocopy	retro_nleu_259,
Otolemur garnettii	ENSOGAG00000005709	3 retrocopies	retro_ogar_2181, retro_ogar_3022, retro_ogar_3313,
Pelodiscus sinensis	ENSPSIG00000004134	1 retrocopy	retro_psin_44,
Pteropus vampyrus	ENSPVAG00000013325	1 retrocopy	retro_pvam_1339,
Rattus norvegicus	ENSRNOG00000009568	3 retrocopies	retro_rnor_1091, retro_rnor_1098, retro_rnor_2457,
Sarcophilus harrisii	ENSSHAG00000008787	1 retrocopy	retro_shar_573,
Tursiops truncatus	ENSTTRG00000001613	1 retrocopy	retro_ttru_1236,