RetrogeneDB ID: retro_mluc_1607

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL429871:4206170..4206735(-)
• Located in intron of: ENSMLUG00000013618

Retrocopy information

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

Parental gene information

• Parental gene symbol: THAP1
• Ensembl ID: ENSMLUG00000003837
• Aliases: None
• Description: None

Sequence

>retro_mluc_1607
GTGGTGCAGTCCTGTTCCATCTAAGGTGGCAAGAAACCAGTAGGATAAGGATAAGCCCATTTATTTCCACAAGTTTCCTC
TTACTTGACCCAGTCTTTGCAAAGAATGGGAGGCAGCTATCAGAAGAAAAAACTAAACCCAACAAGTATAGCAGTATTTT
TTGGGAACACTTTACTCCAGATTGCTTTACGAGGGAATGCAATAAGTTACTGAAAAAAATGCTATGCCCACAATATTTCT
TTGTACTGAACCACATTACGAGAAGGAAGATCTTCTGGAGCCACAAGAACAGCTTCCCTGCCTCTTTTAAAACCTCCTAA
TTCCCAGGATAACGTTGCTATTGGATTACTAATGCCTCCTCTTCAGAACCCTGGTAATCTTTCAGTTTTCTGTGATCACA
AGTGTATATTGAAGAGGATACATGCGCAAGAGAAAGAGGACTCATTAGCTGGAACACAAGTAAAAAAACTCAGAAAGAAA
CTCAAGATTGCACAGAAATGAAACAGAAGAACAACAGCTTGAAACAGTAAAGAAGGCTGTACACTTCCATAAAGAGAAAG
ACATA

Alignment

ORF - retro_mluc_1607 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 57.36 %
• Parental protein coverage: 90.52 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 5

Retrocopy - Parental Gene Alignment:

Parental  MVQSCSAYGCK-NRYHKDKPVSFHKFP-LTRPNLCKEWEAAIRRKNFKPTKYSSICSEHFTPDCFKRECN
          .VQSCS..G.K.N...KDKP..FHKFP.L..P...K........K..KP.KYSSI..EHFTPDCF.RECN
Retrocopy VVQSCSI*GGK>NQ*DKDKPIYFHKFP>LLDPVFAKNGRQLSEEKT-KPNKYSSIFWEHFTPDCFTRECN

Parental  NKLLKE-NAVPTIFLCTEPRDKKEDL-EPQEQ-PSPPPLKPPISQVDAAIGLLMPPLQTPDNLSVFCDHN
          .KLLK..NA.PTIFLCTEP...KEDL.EPQEQ..S.P.LKPP.SQ...AIGLLMPPLQ.P.NLSVFCDH.
Retrocopy -KLLKK<NAMPTIFLCTEPHYEKEDLLEPQEQ<ASLPLLKPPNSQDNVAIGLLMPPLQNPGNLSVFCDHK

Parental  YTVEDTMHQRKRIQELELQVEKLRKKLKTAQQRCRR-QERQLEKLKEAIHFQKEKDV
          ........Q.K.......QV.KLRKKLK.AQ...RR.Q.....K.....H..KEKD.
Retrocopy CILKRIHAQEKEDSLAGTQVKKLRKKLKIAQK*NRR>QQLETVKKAVHFH--KEKDI

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_1607 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 4 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Erinaceus europaeus	ENSEEUG00000003332	2 retrocopies	retro_eeur_131, retro_eeur_172,
Myotis lucifugus	ENSMLUG00000003837	1 retrocopy	retro_mluc_1607 ,
Myotis lucifugus	ENSMLUG00000015130	1 retrocopy	retro_mluc_1285,
Oryctolagus cuniculus	ENSOCUG00000001391	1 retrocopy	retro_ocun_1582,