RetrogeneDB ID: retro_mluc_1873

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL429933:2197944..2198913(-)
• Located in intron of: ENSMLUG00000002350

Retrocopy information

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

Parental gene information

• Parental gene symbol: SPAST
• Ensembl ID: ENSMLUG00000015352
• Aliases: None
• Description: None

Sequence

>retro_mluc_1873
AAGAGTACACCAAAAACAAATGGAACAAATAAACCTTCAACCCCTACAACTGCAGCTCGTAAAAAGAAAGACTTGAAGTC
AATTTTAGGAACATGGACAGTAACCTCGCTAACCTTATAATGAATGAAATTGTAGACAATGGAACGGCTGTTAAATTTGA
TGATATAGCTGGTCAAGAATTAGCAAAACAAGCATTACAAGAAATTGTCATTCTTCCTTCTCCGAGGCCTGAGTTGTTTA
CAGGGCTTAGAGCTCCTGCCAGAGGATTGTTACTCTTTGGTCCACCTGGAAATGGGAAAACAATGCTGGCTAAAGCAGTA
GCTGCAGAATCTAATGCAACCTTCTTTAATATAAGTGCTGCAAGCTTAACTTCAAAATATGTGGGAGGAGAGAAGTTGGT
GAGAGCTCTTTTTGCTGTGACTCGAGAACTTCAACCTTCAATAATTTTTATAGATGAAGTTGATAGCCTTTTGTGTGAAA
GGAGGGAAGGAGAACATGATGCTAGTAGACGCCTAAAAACTGAATTTCTAATAGAATTTGATGGTGTATAGTCTGCTGGA
GATGACAGAGTACTTGTAATGGGTGTAACTAATAGACCACAAGAGCTTGATGAGGCTGTTCTCAGGCGTTTCACCAAACG
GGTGTCTTTGCCAAATGAGGAGACACGACTACTTTTACTAAAAAATCTATTATGTAAACAGGGAAGCTCATTGACCCAAA
AAGAACTAGCACAACTTGCTAGAATGACTGATGGATACTCAGGTTCTAACAGCTTTAGCAAAAGATGCAGCTCTGGGTCC
TATCCGAGAACTGAAACCAGAACAAGTGAAGAATATGTCTGCCAATGAGATGAGAAATATTTGATTATCTGACTTCACTG
AATCCTTGAAAAAGATAAAACGCAGCGTGGGCCCTCAAACCTTAGAAGCATACATACGTTGGAACAAGGACTTTGGAGAT
ACCACTGTT

Alignment

ORF - retro_mluc_1873 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 91.21 %
• Parental protein coverage: 52.4 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  KSTPKTNRTNKPSTPTTAARK-KKDLK-NFRNVDSNLANLIMNEIVDNGTAVKFDDVAGQELAKQALQEI
          KSTPKTN.TNKPSTPTTAARK.K..L..NFRN.DSNLANLIMNEIVDNGTAVKFDD.AGQELAKQALQEI
Retrocopy KSTPKTNGTNKPSTPTTAARK<KERLEVNFRNMDSNLANLIMNEIVDNGTAVKFDDIAGQELAKQALQEI

Parental  VILPSLRPELFTGLRAPARGLLLFGPPGNGKTMLAKAVAAESNATFFNISAASLTSKYVGEGEKLVRALF
          VILPS.RPELFTGLRAPARGLLLFGPPGNGKTMLAKAVAAESNATFFNISAASLTSKYVG.GEKLVRALF
Retrocopy VILPSPRPELFTGLRAPARGLLLFGPPGNGKTMLAKAVAAESNATFFNISAASLTSKYVG-GEKLVRALF

Parental  AVARELQPSIIFIDEVDSLLCERREGEHDASRRLKTEFLIEFDGVQSAGDDRVLVMGATNRPQELDEAVL
          AV.RELQPSIIFIDEVDSLLCERREGEHDASRRLKTEFLIEFDGV.SAGDDRVLVMG.TNRPQELDEAVL
Retrocopy AVTRELQPSIIFIDEVDSLLCERREGEHDASRRLKTEFLIEFDGV*SAGDDRVLVMGVTNRPQELDEAVL

Parental  RRFTKRVYVSLPNEETRRLLLKNLLCKQGSPLTQKELAQLARMTDGYSGSDLTALAKDAALG-PIRELKP
          RRFTKR..VSLPNEETR.LLLKNLLCKQGS.LTQKELAQLARMTDGYSGS......K....G.PIRELKP
Retrocopy RRFTKR--VSLPNEETRLLLLKNLLCKQGSSLTQKELAQLARMTDGYSGSN--SFSKRCSSG>PIRELKP

Parental  EQVKNMSANEMRNIRLSDFTESLKKIKRSVGPQTLEAYIRWNKDFGDTTV
          EQVKNMSANEMRNI.LSDFTESLKKIKRSVGPQTLEAYIRWNKDFGDTTV
Retrocopy EQVKNMSANEMRNI*LSDFTESLKKIKRSVGPQTLEAYIRWNKDFGDTTV

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_1873 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 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Loxodonta africana	ENSLAFG00000007400	1 retrocopy	retro_lafr_1056,
Myotis lucifugus	ENSMLUG00000015352	1 retrocopy	retro_mluc_1873 ,
Oryzias latipes	ENSORLG00000012235	1 retrocopy	retro_olat_10,
Takifugu rubripes	ENSTRUG00000000131	1 retrocopy	retro_trub_21,