RetrogeneDB ID: retro_mmus_869

Retrocopy location

• Organism: Mouse (Mus musculus)
• Coordinates: 12:62365314..62366241(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: Mppe1
• Ensembl ID: ENSMUSG00000062526
• Aliases: Mppe1, A530095G11
• Description: metallophosphoesterase 1 [Source:MGI Symbol;Acc:MGI:2661311]

Sequence

>retro_mmus_869
CTCACAGGACTCACAGTCGTCATTATCTCTGTGCTTCTGTTTTGTGAATATTTTATCTATTACCTGTTTCGGTGCCATTG
GCCTGAGGTGAAGACTTTAGCCCATGGCAGCAGGCAGGAGCCTGTACTGAAAGCCATGTTTCTGGCTGACACTCACTTAC
TTGGGGAGGTAAGAGGCCACTGGCTGAACAAATTACAAAGGGAGTGGCAAATGGAGAGAGCTTTTCAGTCAGCTCTGTGG
TTGCTGCAACCGGAAGTCGTCTTCATTTTGGGAGACATCTTTGATGAAGGGAAGTGGAGCTCCGTCCAGGCCTGGGCAGA
CAACGTGCAGAGGTTTCAGAGGATGTTCAGACATGACAGCCATGTGCAGCTGAAGGTGGTAATTGGCAATCATGACGTTG
GCTTCCACTATCAGATGAGTAAATAAAGAATAAAGCAATTTGAGAAAGTGTTCGGCTCTGAAAGACTGCTCTCTCTGAAA
GGAGTTAATTTTGTCATGGTCACCAGCGTTGCAATGGAAGGGGATGGTTGTGTCATATGCTCTGAAGAGGAAGCTGAACT
CAGAGGGATCTCTCATAAACTGAATTGCTCCGAAGAGGTGCCAGGATCCAGCCAGTGTGACCGTGAGCCGCGGCTCCCCT
TGTCTGCTCCCAGGTTGCTGCAGCACTACCTGCTCTACCGGGCCAGTGATGCTAACTGTTCGGGTGAAGATGCATCTCCC
CCAGAGGAAAGGAACGTCCCCTTTGAGGAGAAATATTATGTTCTTTCTCGGGAGGCCTCACAAAAGCTGTTGTGGTGGCT
CGGGCCTCGCCTGGTGCTGAGTGGCCACACACCCAGTGCCTGTGAGGTGCTCCACCCAGGAGGAGCCCCTGAGGTGAGAG
TCCCATCTTTCAGTTGGAGAAACCAAAACAACCCAAGTTTCATCATG

Alignment

ORF - retro_mmus_869 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 90.76 %
• Parental protein coverage: 79.09 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  LLKLTVVIISVLLFCEYFIYYLVLFRCHWPEVKTLAHGGRQEPVLKAMFLADTHLLGEIRGHWLDKLRRE
          L..LTVVIISVLLFCEYFIYYL..FRCHWPEVKTLAHG.RQEPVLKAMFLADTHLLGE.RGHWL.KL.RE
Retrocopy LTGLTVVIISVLLFCEYFIYYL--FRCHWPEVKTLAHGSRQEPVLKAMFLADTHLLGEVRGHWLNKLQRE

Parental  WQMERAFQTALWLLQPEVVFILGDIFDEGKWSSDQAWADDVQRFQRMFRHDSHVQLKVVIGNHDVGFHYQ
          WQMERAFQ.ALWLLQPEVVFILGDIFDEGKWSS.QAWAD.VQRFQRMFRHDSHVQLKVVIGNHDVGFHYQ
Retrocopy WQMERAFQSALWLLQPEVVFILGDIFDEGKWSSVQAWADNVQRFQRMFRHDSHVQLKVVIGNHDVGFHYQ

Parental  MSKYRIKRFEKVFGSERLLSLKGVNFVMVNSVAMEGDGCIICSEEEAELREISRKLNCSQEQVPGSSQCD
          MSK.RIK.FEKVFGSERLLSLKGVNFVMV.SVAMEGDGC.ICSEEEAELR.IS.KLNCS.E.VPGSSQCD
Retrocopy MSK*RIKQFEKVFGSERLLSLKGVNFVMVTSVAMEGDGCVICSEEEAELRGISHKLNCS-EEVPGSSQCD

Parental  REPEPRLPLSAPVLLQHYPLYRASDANCSGEDAAPPEERNVPFEEKYDVLSREASQKLLWWLRPRLVLSG
          R..EPRLPLSAP.LLQHY.LYRASDANCSGEDA.PPEERNVPFEEKY.VLSREASQKLLWWL.PRLVLSG
Retrocopy R--EPRLPLSAPRLLQHYLLYRASDANCSGEDASPPEERNVPFEEKYYVLSREASQKLLWWLGPRLVLSG

Parental  HTHSACEVLHPGGAPEVSVPSFSWRNRNNPSFIM
          HT.SACEVLHPGGAPEV.VPSFSWRN.NNPSFIM
Retrocopy HTPSACEVLHPGGAPEVRVPSFSWRNQNNPSFIM

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Expression validation based on RNA-Seq data:

Library	Retrocopy expression	Parental gene expression
SRP007412_brain	0.00 RPM	8.06 RPM
SRP007412_cerebellum	0.00 RPM	8.25 RPM
SRP007412_heart	0.00 RPM	8.53 RPM
SRP007412_kidney	0.02 RPM	12.01 RPM
SRP007412_liver	0.00 RPM	6.34 RPM
SRP007412_testis	0.00 RPM	3.43 RPM

ChIP-Seq

RNA Polymerase II actvity near the 5' end of retro_mmus_869 was not detected

EST

No EST(s) were mapped for retro_mmus_869 retrocopy.

TSS

No TSS is located nearby retro_mmus_869 retrocopy 5' end.

Lab

retro_mmus_869 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmus_869 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 6 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000154889	1 retrocopy	retro_hsap_1450,
Macaca mulatta	ENSMMUG00000011467	1 retrocopy	retro_mmul_2270,
Mus musculus	ENSMUSG00000062526	1 retrocopy	retro_mmus_869 ,
Otolemur garnettii	ENSOGAG00000007068	2 retrocopies	retro_ogar_1163, retro_ogar_2826,
Pongo abelii	ENSPPYG00000008997	1 retrocopy	retro_pabe_3557,
Pan troglodytes	ENSPTRG00000009872	1 retrocopy	retro_ptro_986,