RetrogeneDB ID: retro_mluc_2012

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL429987:2057481..2058069(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SLC25A16
• Ensembl ID: ENSMLUG00000015241
• Aliases: None
• Description: None

Sequence

>retro_mluc_2012
GTACAAGTTCACAATCACCATTACAAACATTTAGGAGTACTTTCTACCTTGCGTGCTGTTCCCCAAAAGGAGGGATACCT
TGGATTGTATACAGGGAATGGTGCAATGATGATTTGAATCTTTCCCTATGGTGCAATCCAGTTTATGGCGTCTGAGCACT
ATAAAACGTTCATTACTACAAAGCTGGGGGTTTCCGGTCATGGGCACAGATTAATGGCTGGATTCAGGGCAGGTCTGACA
GCGGTATCTGTACTTACCCTCTTGACATGGTTAGAGATCACCTAGCATTCCAGGTGAAAGGGGAACATACTTACACAGGA
ATTACTCATGCATTCAAAACAATTTATGCAAAGGAAGTGGTTTCTTGGACTGTACTGAGGCCTGATGCCTATTATACCAG
GATAGGCTCTATATGTAGGTGTTTTATTTTTTACTTTTGTTACCTTAGAGAGTGTTGGGCTTTCCCAGGCGCCCACCCTT
CTTGGCAGGCCTTCATCAGATAATCCTATTGTCTTAGTTTTGAAAACTCACATAAACTCACTTTGTGGTGGTGTGGTTGG
AGCAACAGCACAGACAATATCCTGCCCC

Alignment

ORF - retro_mluc_2012 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.18 %
• Parental protein coverage: 59.58 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  LQAHNHHYKHLEIGVFSTLRAVPQKEGYLGLYKGNGAMMIRIFPYGAIQFMAFEHYKTFITTKLGISGHV
          .Q.HNHHYKHL..GV.STLRAVPQKEGYLGLY.GNGAMMI.IFPYGAIQFMA.EHYKTFITTKLG.SGH.
Retrocopy VQVHNHHYKHL--GVLSTLRAVPQKEGYLGLYTGNGAMMI*IFPYGAIQFMASEHYKTFITTKLGVSGHG

Parental  HRLMAGSMAGMTAV-ICTYPLDMVRVRLAFQVKGEHTYTGIIHAFKTIYAKE-GGF-LGFYRGLMPTILG
          HRLMAG..AG.TAV.ICTYPLDMVR..LAFQVKGEHTYTGI.HAFKTIYAKE..GF.LG.Y.GLMP.I.G
Retrocopy HRLMAGFRAGLTAV<ICTYPLDMVRDHLAFQVKGEHTYTGITHAFKTIYAKE<SGF<LGLY*GLMPIIPG

Parental  MAPYAGVSFFTFGTLKSVGLSHAPTLLGRPSSDNPNVLVLKTHINLLCGGVAGAIAQTISYP
          .A.Y.GV.FFTF.TL.SVGLS.APTLLGRPSSDNP.VLVLKTHIN.LCGGV.GA.AQTIS.P
Retrocopy *ALYVGVLFFTFVTLESVGLSQAPTLLGRPSSDNPIVLVLKTHINSLCGGVVGATAQTISCP

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_2012 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 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000013726	1 retrocopy	retro_cfam_1092,
Myotis lucifugus	ENSMLUG00000015241	2 retrocopies	retro_mluc_1399, retro_mluc_2012 ,
Monodelphis domestica	ENSMODG00000017305	1 retrocopy	retro_mdom_1534,
Ochotona princeps	ENSOPRG00000002758	1 retrocopy	retro_opri_1003,
Vicugna pacos	ENSVPAG00000011819	1 retrocopy	retro_vpac_630,