RetrogeneDB ID: retro_mmur_38

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: scaffold_22722:5564..6509(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMICG00000014570
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: FOXR1
• Ensembl ID: ENSMICG00000002680
• Aliases: None
• Description: forkhead box R1 [Source:HGNC Symbol;Acc:29980]

Sequence

>retro_mmur_38
ATGGACCTAAAACTTAAAGATCGTGAATTCTGGTACAGTCTTCATGGCCAGGTCCCAGGGCTTCTGGACTGGGACATGGG
GAATGAGTTATTTCTGCCTTGTACCACAGACCAGCAACCCTCTGCTGAGCAGCACCTTGCCAAATACAGACTCCGAATAA
TGGAGCCCCCAGAGGTGCCTCAGGAGAAGAGACCTGGTCTTGACAAAGATGGTCCTCACTGTGAACCCAACCTGTGGATG
TGGGTGAACCCCAACATTGTGTGCCCCCTCGGCAGCCAGGAGGCCCCAAAGCCCAGTAAAAAAAAGGATCTGACAAGCAT
GCCTCCTTCCCCTCAGCTCCCTCTAAAGGATGAAGAGTCAAACTGTTCAGAGGCCACAGTGGTGGAGTCCCTGCCATCTT
CCTCAAGTGAGCAGTCTCCTTTACGGAAGCGGTTCATCTCTTCCCCTAGTGACTGGGACACAGAAGAGGAGACTGAGGAA
CAAGAGGACAATTCTGTGGCCCTCCAGCCTCCTAACAAAAGGGAGTGCTTCCGGAGCCAGAAGCTGTGGCCAATCAACAG
CCAGGAGAGGAGGTCCTGGCCACGGCCTCCTCTCAATTACAGCCACCTAATTGCCCTAGCATTAAAAAACAGCCCTCCCT
GTGGCCTCAATGTGCAAGAGATCTACAATTTCACCCGACAGCATTTCCCTTTTTTCTGTACCGCTCCAGATGGCTGGAAG
AACACTATTCGCCACAACCTCTGCTTCCTGGGCAGCTTTGAGAAGACGCCAGTAAGCCCTCAGGATGGGGCCAATGCAAA
ACCTCGCTCTTGCCTCTGGAGGCTCACTGAGGAGGGACACCGCCGGTTTCAGGAGGAGACTCGTTCTTTAGCCTCCGCTC
GGAGGGAGAGCATCCTACAGTGCATGAGCCAGCCAGAGGTGATGACCTCCCTCTTCGACCTTTGA

Alignment

ORF - retro_mmur_38 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 63.7 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MGNESFLAFTTAHLPLAEQNLARYKLRVVDPPKLPLEKKPNSEDDGPEFEPNLWMWVNPNVVFPPGKLEV
          MGNE.FL..TT...P.AEQ.LA.Y.LR...PP..P.EK.P....DGP..EPNLWMWVNPN.V.P.G..E.
Retrocopy MGNELFLPCTTDQQPSAEQHLAKYRLRIMEPPEVPQEKRPGLDKDGPHCEPNLWMWVNPNIVCPLGSQEA

Parental  PESSKREDVASTLPSPQPPQEEEDANGSEATGVESLPLSSSEQSPSQKHFASSPSTLELTEEEEAEDQDD
          P..SK..D..S..PSPQ.P...E..N.SEAT.VESLP.SSSEQSP..K.F.SSPS......EEE.E.Q.D
Retrocopy PKPSKKKDLTSMPPSPQLPLKDEESNCSEATVVESLPSSSSEQSPLRKRFISSPSDWDT--EEETEEQED

Parental  GSSVALPSPHKRAPLQNRRLRQANNQAGRLWSRPPLNYFHLIALALRNSSPCGLNVQQIYSFTRHHFPFF
          ..SVAL..P.KR.......L...N.Q..R.W.RPPLNY.HLIALAL.NS.PCGLNVQ.IY.FTR.HFPFF
Retrocopy -NSVALQPPNKRECFRSQKLWPINSQERRSWPRPPLNYSHLIALALKNSPPCGLNVQEIYNFTRQHFPFF

Parental  RTAPEGWKNTVRHNLCFRDSFEKVPVSAQGGANTRPRSCLWKLTEEGHRRFEEEARALASTRLQSIQQCM
          .TAP.GWKNT.RHNLCF..SFEK.PVS.Q.GAN..PRSCLW.LTEEGHRRF.EE.R.LAS.R..SI.QCM
Retrocopy CTAPDGWKNTIRHNLCFLGSFEKTPVSPQDGANAKPRSCLWRLTEEGHRRFQEETRSLASARRESILQCM

Parental  SQPDVMPFLFDL
          SQP.VM..LFDL
Retrocopy SQPEVMTSLFDL

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_38 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_38 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 18 parental genes, and 18 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000000053	1 retrocopy	retro_amel_39,
Bos taurus	ENSBTAG00000014606	1 retrocopy	retro_btau_189,
Canis familiaris	ENSCAFG00000012417	1 retrocopy	retro_cfam_209,
Callithrix jacchus	ENSCJAG00000013656	1 retrocopy	retro_cjac_4066,
Dasypus novemcinctus	ENSDNOG00000009414	1 retrocopy	retro_dnov_22,
Dipodomys ordii	ENSDORG00000001960	1 retrocopy	retro_dord_651,
Homo sapiens	ENSG00000176302	1 retrocopy	retro_hsap_72,
Microcebus murinus	ENSMICG00000002680	1 retrocopy	retro_mmur_38 ,
Macaca mulatta	ENSMMUG00000022722	1 retrocopy	retro_mmul_125,
Mustela putorius furo	ENSMPUG00000004890	1 retrocopy	retro_mputfur_161,
Nomascus leucogenys	ENSNLEG00000007376	1 retrocopy	retro_nleu_50,
Otolemur garnettii	ENSOGAG00000007258	1 retrocopy	retro_ogar_296,
Procavia capensis	ENSPCAG00000010132	1 retrocopy	retro_pcap_12,
Pongo abelii	ENSPPYG00000003947	1 retrocopy	retro_pabe_69,
Pan troglodytes	ENSPTRG00000004358	1 retrocopy	retro_ptro_94,
Sorex araneus	ENSSARG00000011319	1 retrocopy	retro_sara_38,
Sus scrofa	ENSSSCG00000015101	1 retrocopy	retro_sscr_36,
Ictidomys tridecemlineatus	ENSSTOG00000014321	1 retrocopy	retro_itri_158,