RetrogeneDB ID: retro_mluc_2417

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL430353:365425..365934(+)
• Located in intron of: ENSMLUG00000002654

Retrocopy information

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

Parental gene information

• Parental gene symbol: PRKAG1
• Ensembl ID: ENSMLUG00000011156
• Aliases: None
• Description: None

Sequence

>retro_mluc_2417
TCAGGCAACACCTTGTACATCCTCACCCACAAGCGCATCTTCAAGTTCCTCAAATTACTTATCGCCGAGTTCCCCAAGCC
AGAGTTCATGTCTGAGTCCCTGGAAGAGCTACAGCCTGGCACCTATGCCAACATTGCTATGGCCTGCACTACCACCCCGT
CTACATGGTTCTGGGCATTTTCGTGCAGCACCGAGTCCCGGCCCTGCCTGTGGTGGATGAGAAAGGGCGTGTGGTGGACA
TCGACTCCAAGTTTGATGTTATCAATCTGGCAGCAGAAAAGACCTCAACAACCTAGATGTGTCTGACCAAAGCCCTCCAG
CATCGATCACGTTACTCTGAGGGTGTCCTTCAGTGCCCCCTGCATGAAACTCAGGAGACCATCATCAACAGGCCGGTGGG
AGCAGGAGTTCACCGACTTGTAGTGGTGGTTGAGAATGGAGTGGTCAAGGGCATTGTCGCACTGTCAGACATCCTGCAGG
CCCTGGTGCTCACAGGCGGAGATAAGCCC

Alignment

ORF - retro_mluc_2417 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 81.4 %
• Parental protein coverage: 51.98 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  SGNTLYILTHKRILKFLKLFITEFPKPEFMSKSLEELQIGTYANIAMVRTTTP-VYVALGIFVQHRVSAL
          SGNTLYILTHKRI.KFLKL.I.EFPKPEFMS.SLEELQ.GTYANIAM..TTTP.VY..LGIFVQHRV.AL
Retrocopy SGNTLYILTHKRIFKFLKLLIAEFPKPEFMSESLEELQPGTYANIAMACTTTP<VYMVLGIFVQHRVPAL

Parental  PVVDEKGRVVDIYSKFDVINLAAEKTYNNLDVSVTKALQHRSHYFEGVLKCYLHETLETIINRLVEAEVH
          PVVDEKGRVVDI.SKFDVINLAAEKT........TKALQHRS.Y.EGVL.C.LHET.ETIINR.V.A.VH
Retrocopy PVVDEKGRVVDIDSKFDVINLAAEKT-STT*MCLTKALQHRSRYSEGVLQCPLHETQETIINRPVGAGVH

Parental  RLVVVDENDVVKGIVSLSDILQALVLTGGEKP
          RLVVV.EN.VVKGIV.LSDILQALVLTGG.KP
Retrocopy RLVVVVENGVVKGIVALSDILQALVLTGGDKP

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_2417 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 8 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000006964	2 retrocopies	retro_amel_1722, retro_amel_406,
Choloepus hoffmanni	ENSCHOG00000006397	1 retrocopy	retro_chof_32,
Callithrix jacchus	ENSCJAG00000020827	2 retrocopies	retro_cjac_3045, retro_cjac_3892,
Felis catus	ENSFCAG00000000091	1 retrocopy	retro_fcat_1730,
Myotis lucifugus	ENSMLUG00000011156	2 retrocopies	retro_mluc_2417 , retro_mluc_451,
Oryctolagus cuniculus	ENSOCUG00000008409	1 retrocopy	retro_ocun_829,
Sus scrofa	ENSSSCG00000000185	1 retrocopy	retro_sscr_210,
Tursiops truncatus	ENSTTRG00000004730	1 retrocopy	retro_ttru_497,