RetrogeneDB ID: retro_mluc_942

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL429784:13953233..13953778(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: RPF1
• Ensembl ID: ENSMLUG00000016028
• Aliases: None
• Description: None

Sequence

>retro_mluc_942
GTGAACAGCTCACATGTTTATTACAGAAGAGGGCTGGCTCTGAAAATGATGATTCCACCGTGCATCTCAAGAGATTTCAC
AGATCTGATCGTTATTCATGAAGATTGTAAAGCACCCCATGGATTAATTCTGAGCCACTTGCCAAATGGATCAACTGCTC
ATTTCTGAGCAGTGTTCATCTGCGTAAGGAAATTAAGGGAGGAGGCAAGGAGCCCACAGAACACGTACCTGAAATCATTC
TGAACCATTTTACAACAGGCTGGGTCATTCTGCTGGGCAGGTGTTTGCATCTCTCTTTCCCCATAATCCTCAGTTTATCG
GAAGGCAAGGTTGCCACGTTCCACAATCAATGGGATTATATCTTCCTCAGATTTTACAGGTACATACTCAAGAGTGAAAA
GAAGGTGGGAATTCAGGAACTTTGGTCATGTTTTACCTTAAAATTAAGATGTCTTCAGAAAGGAACCTTTGATTCTAAAT
ATGGAGACTACGGCTGGGTCCATAAGCCCCAGGAAATGGGGACACGTGGAAGGAGGGTCCATTTG

Alignment

ORF - retro_mluc_942 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 73.66 %
• Parental protein coverage: 52.59 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  IPNSHVYYRRGLALKRIIPQCISRDFTDLIVINEDRKTPNGLILSHLPNGPTAHFKMSSVRLRKEIKRRG
          ...SHVYYRRGLALK..IP.CISRDFTDLIVI.ED.K.P.GLILSHLPNG.TAHF.......RK......
Retrocopy VNSSHVYYRRGLALKMMIPPCISRDFTDLIVIHEDCKAPHGLILSHLPNGSTAHF*AVFICVRK-LREEA

Parental  KDP-TEHVPEIILNNFTT-RLGHSVGRMFASLFPHNPQFIGRQ-VATFHNQRDYIFFRFHRYIFKSEKKV
          ..P.TEHVPEIILN.FTT.RLGHS.G..FASLFPHNPQFIGRQ.VATFHNQ.DYIF.RF.RYI.KSEKKV
Retrocopy RSP<TEHVPEIILNHFTT<RLGHSAGQVFASLFPHNPQFIGRQ>VATFHNQWDYIFLRFYRYILKSEKKV

Parental  GIQELGPRFTLKLRSLQKGTFDSKYGEYEWVHKPREMDTSRRKFHL
          GIQEL...FTLKLR.LQKGTFDSKYG.Y.WVHKP.EM.T..R..HL
Retrocopy GIQELWSCFTLKLRCLQKGTFDSKYGDYGWVHKPQEMGTRGRRVHL

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_942 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 7 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Erinaceus europaeus	ENSEEUG00000001097	1 retrocopy	retro_eeur_17,
Myotis lucifugus	ENSMLUG00000016028	2 retrocopies	retro_mluc_681, retro_mluc_942 ,
Mus musculus	ENSMUSG00000028187	1 retrocopy	retro_mmus_3026,
Oryctolagus cuniculus	ENSOCUG00000014803	1 retrocopy	retro_ocun_1133,
Pteropus vampyrus	ENSPVAG00000003729	1 retrocopy	retro_pvam_1489,
Rattus norvegicus	ENSRNOG00000015969	1 retrocopy	retro_rnor_1372,
Tupaia belangeri	ENSTBEG00000013600	4 retrocopies	retro_tbel_1027, retro_tbel_2204, retro_tbel_2279, retro_tbel_63,