RetrogeneDB ID: retro_mluc_672

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL429771:6178405..6179076(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SPPL3
• Ensembl ID: ENSMLUG00000012754
• Aliases: None
• Description: None

Sequence

>retro_mluc_672
GAGCAGACCTACTGGTGGGCCTATTCCCTAGTGGATTCCAGTCAAGTGTCTACATTTCTTATTTCCATTCTCCTGATAGT
CTACGGTAGTTTCAGGTCCCTTAATATGGACTTTGAAAATCAAGAGAAAGAGAAAGACAGTAACATTCCTTTGGTGTCTT
TCGGTGGCAACAGCAGCAATAATAGTATCCAAACTATTGACTCTACCCAGGCCCTGTTCCTTCCAATTGAAGTATCTGTC
TCTCTCCTAGCTATGTTCTTCTTCTTTACTCAGTTTAAGTAGTTTTTACAATATGTACAGTAGTTCTTGCAATGATAGCT
TTTGTTTTTCTTCTTCTCCCGATGTGCCAGTATTTAACAAGACCCTGTTCACCTCAGAACAAGATTTCCTTTAGTTGCTG
TGGACATTTCACTGCTGCTGAGCTACTATCATTCTCTCTGTCTGTCATGCTTTGTCCTCATCTGGGTTCTCACTGGGTTT
CTCATGGACGCCCTGGCCATGGGTCTCTCTGTCGCCTATGATCGCCTTCGTCCGCCTGCCCAGCCTCAAGGTCTCCTACC
TGCTTCCCTCAGGGCTCCTAATTGATGGGTGTCTTTGGGGTGTTTTCCTCTGCCTACATCTTCAATAGCAACGTCATGGT
GAAGGCGTCCACCTAGCCGGCTGACAATCCC

Alignment

ORF - retro_mluc_672 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 84.28 %
• Parental protein coverage: 58.59 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  EKTFSRAYSLVDSSQVSTFLISILLIVYGSFRSLNMDFENQDKEKDSNSSSGSFGGNSSNNSIQTIDSTQ
          E.T...AYSLVDSSQVSTFLISILLIVYGSFRSLNMDFENQ.KEKDSN....SFGGNSSNNSIQTIDSTQ
Retrocopy EQTYWWAYSLVDSSQVSTFLISILLIVYGSFRSLNMDFENQEKEKDSNIPLVSFGGNSSNNSIQTIDSTQ

Parental  ALFLPIGASVSLLVMFFFFD-SVQVVFTICTAVLATIAFAFLLLPMCQYLTRPCSPQNKISFGCCGRFTA
          ALFLPI..SVSLL.MFFFF..SV.VVFTICT.VLA.IAF.FLLLPMCQYLTRPCSPQNKISF.CCG.FTA
Retrocopy ALFLPIEVSVSLLAMFFFFT<SV*VVFTICTVVLAMIAFVFLLLPMCQYLTRPCSPQNKISFSCCGHFTA

Parental  AELLSFSLSVML-VLIWVLTGHWLLMDALAMGLCVA-MIAFVRLPSLKVSCLLLSGLLI-YDVFWVFFSA
          AELLSFSLSVML.VLIWVLTG...LMDALAMGL.VA.MIAFVRLPSLKVS.LL.SGLLI...VF.VF.SA
Retrocopy AELLSFSLSVML>VLIWVLTG--FLMDALAMGLSVA>MIAFVRLPSLKVSYLLPSGLLI>MGVFGVFSSA

Parental  YIFNSNVMVKVATQPADNP
          YIFNSNVMVK..T.PADNP
Retrocopy YIFNSNVMVKAST*PADNP

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_672 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 9 parental genes, and 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000016589	1 retrocopy	retro_dnov_175,
Homo sapiens	ENSG00000157837	1 retrocopy	retro_hsap_1898,
Gorilla gorilla	ENSGGOG00000016245	1 retrocopy	retro_ggor_1392,
Myotis lucifugus	ENSMLUG00000012754	1 retrocopy	retro_mluc_672 ,
Macaca mulatta	ENSMMUG00000020650	1 retrocopy	retro_mmul_1359,
Pongo abelii	ENSPPYG00000005041	2 retrocopies	retro_pabe_1578, retro_pabe_1579,
Pan troglodytes	ENSPTRG00000005548	1 retrocopy	retro_ptro_1275,
Rattus norvegicus	ENSRNOG00000001178	1 retrocopy	retro_rnor_2157,
Sarcophilus harrisii	ENSSHAG00000015326	1 retrocopy	retro_shar_660,