RetrogeneDB ID: retro_mluc_2172

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL430071:902485..902949(-)
• Located in intron of: ENSMLUG00000015946

Retrocopy information

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

Parental gene information

• Parental gene symbol: PSME2
• Ensembl ID: ENSMLUG00000009769
• Aliases: None
• Description: None

Sequence

>retro_mluc_2172
AAGAAAGAAGTCCCTAAGTGTGGCTTTCTCCCTGGGAATGAGAAGCTCTTGGCCCTGCTTGCCCTGGTTAAGCCAGAAAT
CTGGACTCTCAAAGAAAAATGTATTCTGGTGATCATGTAGATCCAGCACCTGATCCCCAAGATTGAGGATGGAAATGACT
TTGGGGTATCAATCCAGAAGAAGGTGCTGGAGAGGGTGAATGCAGTCAAGACCAAAGTAGAAGCCTTCCAGACAACCATT
TCCAAGTACTTCTCAGAACACGGGGATGCTGTGGCCAAGGCCTCTAAGGAGACCCATGTAATGCATTACCGGGCCTGGTG
CACGAGCGAGATGAGGTGGCCTATGGGGAGCTCAGGGACATGGTCCTGGACCTAAGAGCCTTCTATGCTGAGCTTTATCA
TATCATTAGCAGCAACCTAGAGAAAACTGTCAACCCAAAGGGTGAAGAGAAGCCATCTAAGTAC

Alignment

ORF - retro_mluc_2172 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.74 %
• Parental protein coverage: 61.02 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  RERVPKCGFLPGNEKLLALLALVKPEVWTLKEKCILVITWIQHLIPKIEDGNDFGVAIQEKVLERVNAVK
          ...VPKCGFLPGNEKLLALLALVKPE.WTLKEKCILVI..IQHLIPKIEDGNDFGV.IQ.KVLERVNAVK
Retrocopy KKEVPKCGFLPGNEKLLALLALVKPEIWTLKEKCILVIM*IQHLIPKIEDGNDFGVSIQKKVLERVNAVK

Parental  TKVEAFQTTISKYFSERGDAVAKASKETHVMDYRA-LVHERDEAAYRELRAMVLDLRAFYAELYHIISSN
          TKVEAFQTTISKYFSE.GDAVAKASKETHVM.YRA.LVHERDE.AY.ELR.MVLDLRAFYAELYHIISSN
Retrocopy TKVEAFQTTISKYFSEHGDAVAKASKETHVMHYRA<LVHERDEVAYGELRDMVLDLRAFYAELYHIISSN

Parental  LEKIVNPKGEEKPSMY
          LEK.VNPKGEEKPS.Y
Retrocopy LEKTVNPKGEEKPSKY

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_2172 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 6 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000007167	3 retrocopies	retro_cjac_233, retro_cjac_322, retro_cjac_71,
Felis catus	ENSFCAG00000005585	1 retrocopy	retro_fcat_1605,
Myotis lucifugus	ENSMLUG00000009769	1 retrocopy	retro_mluc_2172 ,
Mus musculus	ENSMUSG00000079197	1 retrocopy	retro_mmus_145,
Otolemur garnettii	ENSOGAG00000016584	1 retrocopy	retro_ogar_61,
Sus scrofa	ENSSSCG00000002004	1 retrocopy	retro_sscr_302,