RetrogeneDB ID: retro_mluc_1490

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL429848:4787862..4788624(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: FRG1
• Ensembl ID: ENSMLUG00000023179
• Aliases: None
• Description: FSHD region gene 1 [Source:HGNC Symbol;Acc:3954]

Sequence

>retro_mluc_1490
ATGGCAGAACACTCCTATGTGAGGTCCACCAAACCCGTGCTCACGGCCACCAAGGCCAAGAATGAAAAGAAAAAGAGCAA
AGAGAAGGAGAGGGGAAAAAAGGATGAAGAAACCCAACTTGATATTGTTGAAATCTGATGGACAGTAACAAACTTTGGTG
AAATTTCAGGAGCCAGAACGATTGAAATGAATTTAAAAAAAAACTACATACATGCATTTGGCAATGGACTTTTGCACTGG
GGGCTCCATATAAGGAAGCTGATGAGGGTCCTAATCCTCCCGACCAGCTTACAGCTGTCAAATTTGTCTGACTCCAAAAT
TGCCCTAAAATCTGGCTAAGGAACATATTTTGGTATAAATTCAGATGGACTTGTTGGGCATTCACATGTGATTGGACTAA
GAGAACAATGGGAGCCAGTCTTTCAAGATTGGAAAATGATTTTATTGGCCTCAAGTAGCTGTTTTATCAGATGAAATGAA
GCAGACCATATAGAAGCAAAAAGTAAAGCAACAGGAGAGGAAGACATGATAAAGATTAGATCCTGAGCTGAAAGAGAAAC
TAAGAAAAAAGCTGATATCCCAGAAGACAAAGGAAATATTAAATGGTGTGAATTATGGAAAAAAAACTTCAGAGCTTCCA
GGACTACAAACTTAAAACAAGCAAGAAGACAGTAAAATTCTTTAAAGGCCTGGAAAGATGGAGTTTTGCATGAAATACTT
CTGGACAGGAGGGTCAAATTGAAAACTGATAGACACTGCAAA

Alignment

ORF - retro_mluc_1490 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 64.62 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 5
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MAEYSYVKSTKLVLKGTKAKSKKKKSKEKRKREDDEETQLDIVGIWWTVTNFGEISGTIAIEMDKGT-YI
          MAE.SYV.STK.VL..TK................DEETQLDIV.I.WTVTNFGEISG...IEM.....YI
Retrocopy MAEHSYVRSTKPVLTATKXXXXXXXXXXXXXXXXDEETQLDIVEI*WTVTNFGEISGARTIEMNXXXXYI

Parental  HALDNGL-FTLGAPHKEVDEGPSPPEQFTAVK-LSDSRIALKSGYGKYLGINSDGLVVGRSDAIGPREQW
          HA..NGL.F.LGAP.KE.DEGP.PP.Q.TAVK.LSDS.IALKSG.G.Y.GINSDGLV.G.S..IG.REQW
Retrocopy HAFGNGL<FALGAPYKEADEGPNPPDQLTAVK>LSDSKIALKSG*GTYFGINSDGLV-GHSHVIGLREQW

Parental  EPVFQDGKMALLASNSCFIRCNEAGDIEAKSKTAGEEEMIKIRSCAERETKKKDDIPEEDKGNVKQCEIN
          EPVFQD.KM.LLAS.SCFIR.NEA..IEAKSK..GEE.MIKIRS.AERETKKK.DIP.EDKGN.K.CE..
Retrocopy EPVFQDWKMILLASSSCFIR*NEADHIEAKSKATGEEDMIKIRS*AERETKKKADIP-EDKGNIKWCEL-

Parental  YVKKFQSFQDQKLKISKEDSKILKKARKDGFLHETLLDRRAKLKADRYCK
          ....F.......LK........L.KA.KDG.LHE.LLDRR.KLK.DR.CK
Retrocopy WXXXFRASRTTNLKQARRQ*NSL-KAWKDGVLHEILLDRRVKLKTDRHCK

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_1490 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 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000013503	1 retrocopy	retro_amel_1609,
Canis familiaris	ENSCAFG00000007135	1 retrocopy	retro_cfam_718,
Felis catus	ENSFCAG00000025737	1 retrocopy	retro_fcat_464,
Myotis lucifugus	ENSMLUG00000023179	2 retrocopies	retro_mluc_1185, retro_mluc_1490 ,
Rattus norvegicus	ENSRNOG00000009846	1 retrocopy	retro_rnor_88,
Sorex araneus	ENSSARG00000002471	1 retrocopy	retro_sara_368,
Tupaia belangeri	ENSTBEG00000014491	2 retrocopies	retro_tbel_1202, retro_tbel_3435,
Tarsius syrichta	ENSTSYG00000010985	2 retrocopies	retro_tsyr_1347, retro_tsyr_1778,