RetrogeneDB ID: retro_mmur_1460

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: scaffold_64291:524..1459(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSMICG00000008789
• Aliases: None
• Description: None

Sequence

>retro_mmur_1460
TTTTGGCTCCCCATGGACATTTTGATATGTTTTTTGAGAGGAGCAAGGATGTAAAGAAAAGAAGAGGTAAAAATGCTGTA
CATCAGCTCTCAGTAACCTTAGAAGATTTACATAATGGTGCAACAAGAAAACTGGCTCTGCAAAACAATGTGACTTGTGA
CAAATGTGAAGGCCGAGGTGGTAAGAAAGGAGCGGTAAGAGTGCTGTCCCAATTGCCAATGTTCTGGAATGCAAATAAGA
ATTCATCAGATAGGACCTGGAATGGTTCAGCAAATTCAATCAGTGTGCATGGAGTGTCAGGGCCATGGGGAATGATCAGT
CCTAAAGAAAGATGTAAAAGCTGCAATGGAAAGAAGATAGTTTGAGAAAAGAAGATTCTAGAAGTTCATATTGACAAAGG
CATGAAAGATGGCCAGAAGATAACATTCCATGGGTGAAGGAGACTGAGAACCAGGACTAGAGCCAGGAGATATTATCATT
GTGTTACATCAGAAGGACCATGCTATTTCACTCGACGAGGAGAAGACCTTTTCATGTGTATGGACATACAGTTGGTTGAA
GCATTATGTGGCTTCCAAAAGCCAATATCTACTCTTGACAACCGAACCATAGTCATCACCTCTCATCCAGGTCAAATTGT
CAAGCATGGAGATATCAAGTGTGTGCTAAATGAAGGCGTGCCAATTTATCGTAGACCATATGAAAAGGATCACCTAATCA
TCGAATTTAAGGTAAATTTTCCTGAAAATGGCTTTCTTTCTCCTGATAAACTCTCTTTGCTGAAAAAACTCCCACCAGAG
AAGAAGGAAGTAGGAGAGACTGATGAAATGGATCAAGTAGAACTCGTGGACTTTGATCCGAATCAAGAGAAATGGCGCCA
TTAAAATGGAGAAGCATATGAGGATGATGAACATCATCCCAGAGGTGGTGTCAAA

Alignment

ORF - retro_mmur_1460 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 63.21 %
• Parental protein coverage: 78.59 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 5

Retrocopy - Parental Gene Alignment:

Parental  FSSPMDI-FDMFFGGGGRMARERRGKNVVHQLSVTLEDLYNGVTKKLALQKNVICEKCEGIGGKKGSV-E
          F..PMDI.FDMFF.........RRGKN.VHQLSVTLEDL.NG.T.KLALQ.NV.C.KCEG.GGKKG.V.E
Retrocopy FWLPMDI<FDMFFERS-KDVKKRRGKNAVHQLSVTLEDLHNGATRKLALQNNVTCDKCEGRGGKKGAV>E

Parental  KCPLCKGRGMQIHIQQIGPGMVQQIQTVCVECKGQGE-RINPKDRCESCSGAKVIREKKIIEVHVEKGMK
          .CP.C...GMQI.I.QIGPGMVQQIQ.VC.EC.G.GE..I.PK.RC.SC.G.K...EKKI.EVH..KGMK
Retrocopy CCPNCQCSGMQIRIHQIGPGMVQQIQSVCMECQGHGE<MISPKERCKSCNGKKIV*EKKILEVHIDKGMK

Parental  DGQKILFH-GEGDQEPELEPGDVIIVLDQKDHSV-FQRRGHDLIMKMKIHLSEALCGFKKTVKTLDDRIL
          DGQKI.FH.GEGD.EP.LEPGD.IIVL.QKDH...F.RRG.DL.M.M.I.L.EALCGF.K...TLD.R..
Retrocopy DGQKITFH>GEGD*EPGLEPGDIIIVLHQKDHAI<FTRRGEDLFMCMDIQLVEALCGFQKPISTLDNRTI

Parental  VITSKSGEVIKHGDLKCVRNEGMPIYKAPLEKGTLIIQFLVIFPEKHWLSPEKLPQLEALLPPRQKVRIT
          VITS..G...KHGD.KCV.NEG.PIY..P.EK..LII.F.V.FPE...LSP.KL..L..L.P....V..T
Retrocopy VITSHPGQIVKHGDIKCVLNEGVPIYRRPYEKDHLIIEFKVNFPENGFLSPDKLSLLKKLPPEKKEVGET

Parental  DDMDQVELKEFNPSEQNWRQ-HGEAYEEDDDGPRAGVQ
          D.MDQVEL..F.P....WR...GEAYE.D...PR.GV.
Retrocopy DEMDQVELVDFDPNQEKWRH*NGEAYEDDEHHPRGGVK

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Microcebus murinus was not studied using RNA-Seq expression data.

ChIP-Seq

Microcebus murinus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmur_1460 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_1460 was not experimentally validated.

Homology

Retrocopy orthology:

Microcebus murinus 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 10 parental genes, and 36 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000012576	1 retrocopy	retro_amel_1659,
Dipodomys ordii	ENSDORG00000005972	4 retrocopies	retro_dord_245, retro_dord_280, retro_dord_333, retro_dord_533,
Echinops telfairi	ENSETEG00000004320	4 retrocopies	retro_etel_1010, retro_etel_1031, retro_etel_1067, retro_etel_608,
Macropus eugenii	ENSMEUG00000015982	4 retrocopies	retro_meug_1059, retro_meug_1893, retro_meug_292, retro_meug_624,
Microcebus murinus	ENSMICG00000008789	6 retrocopies	retro_mmur_1242, retro_mmur_1460 , retro_mmur_39, retro_mmur_482, retro_mmur_496, retro_mmur_578,
Mus musculus	ENSMUSG00000032285	1 retrocopy	retro_mmus_2632,
Otolemur garnettii	ENSOGAG00000006752	5 retrocopies	retro_ogar_1760, retro_ogar_1985, retro_ogar_221, retro_ogar_2656, retro_ogar_841,
Ochotona princeps	ENSOPRG00000007594	1 retrocopy	retro_opri_1028,
Tupaia belangeri	ENSTBEG00000009268	9 retrocopies	retro_tbel_2276, retro_tbel_2308, retro_tbel_2790, retro_tbel_2831, retro_tbel_3242, retro_tbel_4322, retro_tbel_4735, retro_tbel_772, retro_tbel_796,
Tarsius syrichta	ENSTSYG00000008600	1 retrocopy	retro_tsyr_1752,