RetrogeneDB ID: retro_mluc_2078

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL430016:144034..144465(+)
• Located in intron of: ENSMLUG00000015636

Retrocopy information

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

Parental gene information

• Parental gene symbol: ARPC4
• Ensembl ID: ENSMLUG00000025088
• Aliases: None
• Description: None

Sequence

>retro_mluc_2078
GAGAACTCCTCTTCCCAGGTTGTGGAAAGACACTACAAGCCCAAGGTGGAGGTCAGGAGTAGCAAAGAGCTCCTGTTTTA
GCCTGTGACCATCAGCAGGAATGAGGAGGAAAAGATTCTGATTGAGGGCTCCATCAGCTCTGTGTAGGTCAGCATTGCTG
TGAAACAGGCTGATGAGATTGAGATTTTATGCCACAAGTTCATGTGCTTCATGGTGAAGCGAGCAGAGAATTTCTTTATT
CTTCCAAGGAAACCAGTGGAGGGTATGACATCAGTTTTCTGATCACCAGCTTCCACACAGAGCAGATATATAAACATAAG
TTGTTGGACTCTGTAATCCACTTCATGGAAAAGATCGACAAATAGATCAGGGAGACGAAGCTGTCGGTCAACACCCATGC
CAGCATTGTGGCTGAGGAGTTCCTCAAGAAT

Alignment

ORF - retro_mluc_2078 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.19 %
• Parental protein coverage: 86.31 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  ENFSSQVVERHNKPEVEVRSSKELLLQPVTISRNEKEKVLIEGSINSVRVSIAVKQADEIEKILCHKFMR
          EN.SSQVVERH.KP.VEVRSSKELL..PVTISRNE.EK.LIEGSI.SV.VSIAVKQADEIE.ILCHKFM.
Retrocopy ENSSSQVVERHYKPKVEVRSSKELLF*PVTISRNEEEKILIEGSISSV*VSIAVKQADEIE-ILCHKFMC

Parental  FMMMRAENFFILRRKPVE-GYDISFLITNFHTEQMYKHKLVDFVIHFMEEIDKEISEMKLSVNARARIVA
          FM..RAENFFIL.RKPVE.GYDISFLIT.FHTEQ.YKHKL.D.VIHFME.IDK.I.E.KLSVN..A.IVA
Retrocopy FMVKRAENFFILPRKPVE<GYDISFLITSFHTEQIYKHKLLDSVIHFMEKIDK*IRETKLSVNTHASIVA

Parental  EEFLKN
          EEFLKN
Retrocopy EEFLKN

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_2078 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 5 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000007964	2 retrocopies	retro_btau_680, retro_btau_849,
Callithrix jacchus	ENSCJAG00000016175	1 retrocopy	retro_cjac_1681,
Myotis lucifugus	ENSMLUG00000025088	1 retrocopy	retro_mluc_2078 ,
Monodelphis domestica	ENSMODG00000005136	1 retrocopy	retro_mdom_1390,
Otolemur garnettii	ENSOGAG00000026074	2 retrocopies	retro_ogar_1033, retro_ogar_875,