RetrogeneDB ID: retro_mmur_339

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: GeneScaffold_2483:292262..292811(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: UBE2Q1
• Ensembl ID: ENSMICG00000001427
• Aliases: None
• Description: ubiquitin-conjugating enzyme E2Q family member 1 [Source:HGNC Symbol;Acc:15698]

Sequence

>retro_mmur_339
GAAGACCATTTAAATGGTGCAGTGTCTGGGTAGTGCAAACTTCAGACAGACTTATGAAAGAGCTCAGGGACATATACAGA
TCACAGAGTTATAAAACAGGGATTTATTCAGTGGGACTTATAAATGACAGTTTATTTGACTGGCATGTTAAACTGCAAAG
GGTTGACTCTGATAGTCCTTTGCACAGTGATCTTCAGATCTTAAAAGAAAAGAAGGCATAGAATATATTTTGCTTAACTT
CTCTTTTAAGGATGACTTTACATTTGGTCCCCCATTTGTCTGAGTGGTTTTAGCTGTTCTCTCAGGAGGGTACCCATTGG
GTAGAGGAGCATGATGTATGGAACTTCTCACAAAACAGGGCTGGAGCAGTGCCCACTCAATAGAATCCATCATCATGCAA
ATAGATGCCACCTTGTTAAAGATGTAGCCAAAGTACAGTTTGGAACAAGTAAGAATCAATATAATGAAGCAAGAGCTCAA
CAATTGTACAATTCTATTCTACAGATATATGAGAAAAATGGCTGGTATGCTCCTCCAAAGGAAGATGGC

Alignment

ORF - retro_mmur_339 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 72.19 %
• Parental protein coverage: 58.65 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  QDYLNGAVSG-SVQATDRLMKELRDIYRSQSFKGGNYAVELVNDSLYDWNVKLLKVDQDSALHNDLQILK
          .D.LNGAVSG..VQ..DRLMKELRDIYRSQS.K.G.Y.V.L.NDSL.DW.VKL..VD.DS.LH.DLQILK
Retrocopy EDHLNGAVSG<VVQTSDRLMKELRDIYRSQSYKTGIYSVGLINDSLFDWHVKLQRVDSDSPLHSDLQILK

Parental  EK-EGADFILLNFSFKDNFPFDPPFVRVVSPVLSGGYVLGGGAICMELLTKQGWSSAYSIESVIMQISAT
          EK.EG...ILLNFSFKD.F.F.PPFV.VV..VLSGGY.LG.GA.CMELLTKQGWSSA.SIES.IMQI.AT
Retrocopy EK<EGIEYILLNFSFKDDFTFGPPFV*VVLAVLSGGYPLGRGA*CMELLTKQGWSSAHSIESIIMQIDAT

Parental  -LVKGKARVQFGANKSQYSLTRAQQSYKSLVQIHEKN-WYTPPKEDG
          .LVK..A.VQFG..K.QY...RAQQ.Y.S..QI.EKN.WY.PPKEDG
Retrocopy <LVKDVAKVQFGTSKNQYNEARAQQLYNSILQIYEKNGWYAPPKEDG

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_339 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_339 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 6 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000008889	1 retrocopy	retro_dnov_449,
Macropus eugenii	ENSMEUG00000003718	2 retrocopies	retro_meug_1816, retro_meug_358,
Microcebus murinus	ENSMICG00000001427	1 retrocopy	retro_mmur_339 ,
Rattus norvegicus	ENSRNOG00000020791	1 retrocopy	retro_rnor_297,
Tupaia belangeri	ENSTBEG00000013007	1 retrocopy	retro_tbel_3091,
Tursiops truncatus	ENSTTRG00000013998	1 retrocopy	retro_ttru_975,