RetrogeneDB ID: retro_mmur_1

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: scaffold_6461:9106..10711(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMICG00000006039
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: USP22
• Ensembl ID: ENSMICG00000009998
• Aliases: None
• Description: ubiquitin specific peptidase 22 [Source:HGNC Symbol;Acc:12621]

Sequence

>retro_mmur_1
GATGTGGATTTTGCTGTGGGGCCACCAGGTTGCTCCCACGTGAACAGCTTTAAGGTGGGAGAGAACTGGAGGCAGGAACT
GCGGGTCATCTACCAGTGCTTCGTGTGGTGTGGAACCCCAGAGACCAGGAAAAGCAAAGCAAAGTCGTGCATCTGCCATG
TGTGTGGCACCCATTTGAACAGACTCCACTCTTGCCTTTCCTGTGTCTTCTTTGGCTGCTTCACAGAGAAACACATTCAT
GAGCACGCTGAGACAAAACAACACAATTTAGCCGTAGACCTTTATTATGGAGGCATTTACTGCTTTATGTGTAAGGACTA
TGTATATGACAAAGACATTGAGCAAATTGCCAAAGATGAGCAAGGAGAAGCTTTGAAATTACAAGCCTCCACCTCAACAG
AGTTTTCTCACCAGCAGTGTTCAGTGCCAGGCATTGGTGAGAAATACCCAACCTGGGAAACAACCAAACCAGAATTGGAA
CTGCTGGGGCACAACCCACGGAGAAGGAGAATTACCTCTAGCTTCACCATCGGTTTAAGAGGACTAATCAATCTTGGCAA
CACGTGCTTTATGAATTGCATTGTCCAGGCCCTTACCCACACTCCGATCCTGAGAGATTTCTTCCTCTCTGACAGGCACC
GATGTGAAATGCCGAGTCCTGAGTTGTGTCTGGTCTGTGAGATGTCTTCACTCTTTCGGGAGTTGTATTCTGGAAACCCG
TCTCCTCATGTTCCCTATAAGTTATTGCACCTGGTGTGGATACATGCTCGCCATTTAGCAGGGTACAGGCAACAGGATGC
CCATGAGTTCCTCATCGCAGCGTTAGATGTCCTACACAGGCACTGCAAAGGTGATGATGTCGGGAAGGCGGCCAACAATC
CCAACCACTGTAACTGCATCATAGACCAAATCTTCACAGGTGGCCTGCAGTCTGATGTCACCTGTCAAGCCTGCCATGGC
GTTTCCACCACCATAGACCCCTGCTGGGACATTAGTTTGGACTTGCCTGGCTCTTGCACCTCCTTCTGGCCCATGAGCCC
AGGGAGGGAGAGCAGTGTGAATGGGGAAGGCCACATACCAGGAATCACCACCCTGACGGACTGCTTGCGAAGGTTTACAA
GGCCAGAGCACTTAGGAAGTAGTGCCAAAATCAAATGTGGTAGTTGCCAAAGCTACCAGGAATCTACCAAACAGCTCACA
ATGAATAAATTACCTGTTGTGGCCTGTTTTCATTTCAAACGGTTTGAACACTCAGCCAAACAGAGGCGCAAGATCACTAC
ATACATTTCCTTTCCTCTGGAGCTGGATATGACACCGTTTATGGCCTCAAGTAAAGAGAGCAGAATGAATGGACAGTTGC
AGCTGCCAACCAATAGTGGAAACAATGAGAATAAGTATTCCTTGTTTGCCGTGGTTAATCACCAAGGAACCTTGGAGAGT
GGCCACTATACCAGCTTCATCCGGCACCACAAGGACCAGTGGTTCAAGTGTGATGATGCCGTCATCACCAAGGCCAGTAT
TAAGGATGTACTGGACAGTGAAGGGTATTTACTGTTCTATCACAAACAGGTCCTGGAACACGAATCAGAAAAAGTGAAAG
AAATG

Alignment

ORF - retro_mmur_1 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.27 %
• Parental protein coverage: 82.48 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  GVGEKFSTWEPTKRELELLKHNPKRRKITSNCTIGLRGLINLGNTCFMNCIVQALTHTPLLRDFFLSDRH
          G.GEK..TWE.TK.ELELL.HNP.RR.ITS..TIGLRGLINLGNTCFMNCIVQALTHTP.LRDFFLSDRH
Retrocopy GIGEKYPTWETTKPELELLGHNPRRRRITSSFTIGLRGLINLGNTCFMNCIVQALTHTPILRDFFLSDRH

Parental  RCEMQSPSSCLVCEMSSLFQEFYSGHRSPHIPYKLLHLVWTHARHLAGYEQQDAHEFLIAALDVLHRHCK
          RCEM.SP..CLVCEMSSLF.E.YSG..SPH.PYKLLHLVW.HARHLAGY.QQDAHEFLIAALDVLHRHCK
Retrocopy RCEMPSPELCLVCEMSSLFRELYSGNPSPHVPYKLLHLVWIHARHLAGYRQQDAHEFLIAALDVLHRHCK

Parental  GDDNGKKANNPNHCNCIIDQIFTGGLQSDVTCQVCHGVSTTIDPFWDISLDLPGSSTPFWPLSPGSEGSV
          GDD.GK.ANNPNHCNCIIDQIFTGGLQSDVTCQ.CHGVSTTIDP.WDISLDLPGS.T.FWP.SPG.E.S.
Retrocopy GDDVGKAANNPNHCNCIIDQIFTGGLQSDVTCQACHGVSTTIDPCWDISLDLPGSCTSFWPMSPGRESS-

Parental  VNGESHVSGTTTLTDCLRRFTRPEHLGSSAKIKCSGCHSYQESTKQLTMKKLPIVACFHLKRFEHSAKLR
          VNGE.H..G.TTLTDCLRRFTRPEHLGSSAKIKC..C.SYQESTKQLTM.KLP.VACFH.KRFEHSAK.R
Retrocopy VNGEGHIPGITTLTDCLRRFTRPEHLGSSAKIKCGSCQSYQESTKQLTMNKLPVVACFHFKRFEHSAKQR

Parental  RKITTYVSFPLELDMTPFMASSKESRMNGQYQQPTDSLSNDNKYSLFAVVNHQGTLESGHYTSFIRQHKD
          RKITTY.SFPLELDMTPFMASSKESRMNGQ.Q.PT.S..N.NKYSLFAVVNHQGTLESGHYTSFIR.HKD
Retrocopy RKITTYISFPLELDMTPFMASSKESRMNGQLQLPTNSGNNENKYSLFAVVNHQGTLESGHYTSFIRHHKD

Parental  QWFKCDDAIITKASIKDVLDSEGYLLFYHKQFLEYE
          QWFKCDDA.ITKASIKDVLDSEGYLLFYHKQ.LE.E
Retrocopy QWFKCDDAVITKASIKDVLDSEGYLLFYHKQVLEHE

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_1 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_1 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 9 parental genes, and 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000008978	1 retrocopy	retro_btau_82,
Canis familiaris	ENSCAFG00000018523	1 retrocopy	retro_cfam_125,
Homo sapiens	ENSG00000124422	1 retrocopy	retro_hsap_26,
Microcebus murinus	ENSMICG00000009998	1 retrocopy	retro_mmur_1 ,
Mus musculus	ENSMUSG00000042506	1 retrocopy	retro_mmus_239,
Otolemur garnettii	ENSOGAG00000015801	1 retrocopy	retro_ogar_274,
Pan troglodytes	ENSPTRG00000008891	1 retrocopy	retro_ptro_44,
Pteropus vampyrus	ENSPVAG00000001934	1 retrocopy	retro_pvam_905,
Ictidomys tridecemlineatus	ENSSTOG00000023814	1 retrocopy	retro_itri_163,