RetrogeneDB ID: retro_mmur_614

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: GeneScaffold_4181:225413..226115(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: U2AF1
• Ensembl ID: ENSMICG00000013835
• Aliases: None
• Description: U2 small nuclear RNA auxiliary factor 1 [Source:HGNC Symbol;Acc:12453]

Sequence

>retro_mmur_614
ATGGCGGAGTACTTGGCCTCCATCTTCGGCACCGAGAAAGACAAAGTCAACTGTTCATTTTATTTCAAAATTGGAGCGTG
TCGTCATGGAGACCGGTGCTCTCGGCTGCACAATAAACCGACCTTTAGCCAGACCATTGCCCTCTTGAACATTTACCGTA
ACCCTCAAAACTCTTCCCAGTCTGCTGACGGGCTGCGCTGTGCTGTGAGCGATGTTGAGATGCAGGAACACTATGATGAG
TTTTTTGAGGAGGTTTTTACAGAAATGGAGGAGAAGTATGGGGAAGTTGAGGAGATGAACGTCTGTGATAACCTGGGAGA
CCACCTGGTGGGGAACGTGTACGTCAAGTTTCGCCGTGAGGAAGACGCAGAAAAGGCTGTGATTGACTTGAATAACCGTT
GGTTCAACGGACAGCCGATCCACGCCGAGCTCTCGCCCGTGACTGACTTCAGGGAGGCCTGCTGCCGCCAGTATGAGATG
GGGGAGTGTACGCGGGGCGGCTTCTGTAACTTCATGCACTTGAAGCCCATTTCGAGAGAACTGCGGCGCGAGCTGTATGG
GCGCCGGCGCAAGAAGCATAGATCGGGGTCCCGGTCCCGGGAGCGTCGGTCCCGGTCTAGAGACCGTGGTCGTGGCGGGG
GCGGCGGGGGACGGGAGCGCGACAGGAGGCGATCTCGAGACCGTGAAAGATCTGGACGATTC

Alignment

ORF - retro_mmur_614 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 92.92 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MAEYLASIFGTEKDKVNCSFYFKIGACRHGDRCSRLHNKPTFSQTILIQNIYRNPQNSAQTADGSHCAVS
          MAEYLASIFGTEKDKVNCSFYFKIGACRHGDRCSRLHNKPTFSQTI...NIYRNPQNS.Q.ADG..CAVS
Retrocopy MAEYLASIFGTEKDKVNCSFYFKIGACRHGDRCSRLHNKPTFSQTIALLNIYRNPQNSSQSADGLRCAVS

Parental  DVEMQEHYDEFFEEVFTEMEEKYGEVEEMNVCDNLGDHLVGNVYVKFRREEDAEKAVIDLNNRWFNGQPI
          DVEMQEHYDEFFEEVFTEMEEKYGEVEEMNVCDNLGDHLVGNVYVKFRREEDAEKAVIDLNNRWFNGQPI
Retrocopy DVEMQEHYDEFFEEVFTEMEEKYGEVEEMNVCDNLGDHLVGNVYVKFRREEDAEKAVIDLNNRWFNGQPI

Parental  HAELSPVTDFREACCRQYEMGECTRGGFCNFMHLKPISRELRRELYGRRRKKHRSRSRSRERRSRSRDRG
          HAELSPVTDFREACCRQYEMGECTRGGFCNFMHLKPISRELRRELYGRRRKKHRS.SRSRER..RSR.R.
Retrocopy HAELSPVTDFREACCRQYEMGECTRGGFCNFMHLKPISRELRRELYGRRRKKHRSGSRSRER--RSRSRD

Parental  RGGGGGGGGGGGGRERDRRRSRDRERSGRF
          R....G.GGGGGGRERDRRRSRDRERSGRF
Retrocopy R----GRGGGGGGRERDRRRSRDRERSGRF

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_614 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_614 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 5 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Microcebus murinus	ENSMICG00000013835	1 retrocopy	retro_mmur_614 ,
Otolemur garnettii	ENSOGAG00000016504	1 retrocopy	retro_ogar_241,
Pan troglodytes	ENSPTRG00000013952	2 retrocopies	retro_ptro_1000, retro_ptro_549,
Tupaia belangeri	ENSTBEG00000000453	2 retrocopies	retro_tbel_2115, retro_tbel_963,
Vicugna pacos	ENSVPAG00000002856	1 retrocopy	retro_vpac_489,