RetrogeneDB ID: retro_mmur_482

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: GeneScaffold_3414:148925..149672(-)
• Located in intron of: ENSMICG00000000792

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_482
TACTATGATGTTTTGGGGGTCAAATGCAATGCCACTCACGAAGAATTGAAAAAGGCTTATAGGAAACTGGCCATGAAGTA
CCACCCTGATAAAAATCCAAATGAAGGAGAGAAGTTTAAACAGATTTCTCAAGCTTACGAAGTTCTCTCTGATGCAAAGA
AAAGGGAACTATATGACAAAAGAGGAGAACAGGCAATTAAAGAGAGTGGAGCCGGTGGTGGTTTTGGCTCCCCCATGGAC
ATCTTTGGTATGTTTTTTGGAGGAAGAGGAAGGATGCAAAGAGAAAGTAGAGGTAAAAATGTTGTACATCAGCTCTCAGT
AACTTAGAAGATTTATATAATGGTGCAACAAGAAAAACTGGCTCTGCAAAAGAATGTGATTTATGACAAATGTGAAGGCT
GAGGTGGTAAGAAAGGAGCAGTAGAGTGCTGTCCCAATTGCCGAGGTACTGGAATGCAAATAAGAATTCATCAGATAGGA
CCTGGAATGGTTCAGCAAATTCAGTCAGTGTGCATGGAGTGCCAGGGCCATGGGGAACGGATCAGTCCTAAAGACAGATG
TAAAAGTTCCAATGGAAGAAAGATAGTTCAAGAAAAGAAGATTCTAGAAGCTCATATCGACAAAGGCATGAAAGATGGCC
AGAAGATAACATTCCATGTTGAAGGAGACCAAGAACCAGGACTAGAGCCAGGAGATATTATCATTGTGTTAGATCAGAAG
GACCATGCTTTTCATGTGTATGGACAT

Alignment

ORF - retro_mmur_482 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 75.49 %
• Parental protein coverage: 63.22 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  YYDILGVKPSASPEEIKKAYRKLALKYHPDKNPDEGEKFKLISQAYEVLSDPKKRDIYDQGGEQAIKEGG
          YYD.LGVK..A..EE.KKAYRKLA.KYHPDKNP.EGEKFK.ISQAYEVLSD.KKR..YD..GEQAIKE.G
Retrocopy YYDVLGVKCNATHEELKKAYRKLAMKYHPDKNPNEGEKFKQISQAYEVLSDAKKRELYDKRGEQAIKESG

Parental  SGGPSFSSPMDIFDMFFGGGGRMARERRGKNVVHQLSVT-LEDLYNGVTK-KLALQKNVICEKCEGIGGK
          .GG..F.SPMDIF.MFFGG.GRM.RE.RGKNVVHQLSVT.LEDLYNG.T..KLALQKNVI..KCEG.GGK
Retrocopy AGG-GFGSPMDIFGMFFGGRGRMQRESRGKNVVHQLSVT<LEDLYNGATR>KLALQKNVIYDKCEG*GGK

Parental  KGSVEKCPLCKGRGMQIHIQQIGPGMVQQIQTVCVECKGQGERINPKDRCESCSGAKVIREKKIIEVHVE
          KG.VE.CP.C.G.GMQI.I.QIGPGMVQQIQ.VC.EC.G.GERI.PKDRC.S..G.K...EKKI.E.H..
Retrocopy KGAVECCPNCRGTGMQIRIHQIGPGMVQQIQSVCMECQGHGERISPKDRCKSSNGRKIVQEKKILEAHID

Parental  KGMKDGQKILFHGEGDQEPELEPGDVIIVLDQKDHSVFQRRGH
          KGMKDGQKI.FH.EGDQEP.LEPGD.IIVLDQKDH..F...GH
Retrocopy KGMKDGQKITFHVEGDQEPGLEPGDIIIVLDQKDHA-FHVYGH

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_482 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_482 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,