RetrogeneDB ID: retro_mluc_462

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: AAPE02067077:394..700(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: PCBD1
• Ensembl ID: ENSMLUG00000016074
• Aliases: None
• Description: None

Sequence

>retro_mluc_462
GCTGGCAAAGCCCACGGCTGAGTGCTGAGGAGAGGGACCAGCTGCTGCCAAACCTGAGGGCCCGGGGGGTAGAAAGAGCG
GGAAGGCCGAGACGCATCTTCAAGCAGGTCCATTTCCAAGACTTCAGCCGGGCTCTTGGCTTCATGACAAGAGTGGCCCT
GCAGCTGAGAAGCTGGACCGGCATCCTGAACGGTTTAACGTGTACAAGGCCCACATCACCCTGAGCACCGTGCGTGTGCA
GGCCTGTCGGACGGACGGGACATAAACCTGGCCAGCTTCATCCAACAAGTAGCAGTGACCATGACC

Alignment

ORF - retro_mluc_462 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 78.9 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 5

Retrocopy - Parental Gene Alignment:

Parental  AGKAH-RLSAEERDQLLPNLRAVGW-NELEGRDA-IFKQFHFKDFNRAFGFMTRVALQ-AEKLDHHPEWF
          AGKAH.RLSAEERDQLLPNLRA.G...E.EGRDA.IFKQ.HF.DF.RA.GFMTRVALQ.AEKLD.HPE.F
Retrocopy AGKAH<RLSAEERDQLLPNLRARGV>KEREGRDA<IFKQVHFQDFSRALGFMTRVALQ<AEKLDRHPERF

Parental  NVYNKVHITLST-HECAGLSE-RDINLASFIEQVAVSMT
          NVY.K.HITLST...CAGLS..RDINLASFI.QVAV.MT
Retrocopy NVY-KAHITLST<RACAGLSDGRDINLASFIQQVAVTMT

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_462 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 11 parental genes, and 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000011866	1 retrocopy	retro_btau_1478,
Cavia porcellus	ENSCPOG00000012703	1 retrocopy	retro_cpor_61,
Felis catus	ENSFCAG00000001235	1 retrocopy	retro_fcat_1478,
Loxodonta africana	ENSLAFG00000001397	1 retrocopy	retro_lafr_1028,
Myotis lucifugus	ENSMLUG00000012638	1 retrocopy	retro_mluc_1445,
Myotis lucifugus	ENSMLUG00000016074	3 retrocopies	retro_mluc_1534, retro_mluc_2459, retro_mluc_462 ,
Procavia capensis	ENSPCAG00000007201	1 retrocopy	retro_pcap_46,
Sus scrofa	ENSSSCG00000010275	1 retrocopy	retro_sscr_744,
Takifugu rubripes	ENSTRUG00000017869	1 retrocopy	retro_trub_26,
Tursiops truncatus	ENSTTRG00000005775	1 retrocopy	retro_ttru_1541,
Vicugna pacos	ENSVPAG00000004496	1 retrocopy	retro_vpac_69,