RetrogeneDB ID:

retro_mmus_2075

Retrocopy
location
Organism:Mouse (Mus musculus)
Coordinates:2:108733297..108734204(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSMUSG00000083697
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:Pgm2
Ensembl ID:ENSMUSG00000025791
Aliases:Pgm2, 2610020G18Rik, AA407108, AI098105, Pgm-2, Pgm1
Description:phosphoglucomutase 2 [Source:MGI Symbol;Acc:MGI:97565]


Retrocopy-Parental alignment summary:






>retro_mmus_2075
CTTGTGGGACTGTATGTAAAGAAGATCTTCTGTGAATAACTTGGTGTCCTTGAAAACTCAGTTGTGAACTGTGCTCCCCT
GGACGACTTTGGAGGCCACCCAACCTGACCCAAACCTCACCTACCTGGTGGAGACGATGAATTCAGGAGAGCATGATTTC
AGGACTGCCTTTGATGGTGATGGGGATCAGAACATGATTCTGGGCATGCATGGGTTCTTTGTGAACCCTTCTGACTCTGT
GGCTGTCATCGCTGCCAACATCTTCAGCATTCCATATTTCCATCAGATCGGGATCTGTGACTTTGCATGAAGCATTCCCA
CAAGTGGTGCTCTGAACTGGGTAGCAAATGCCACAAAAATTGCTTTGGGTGAGACCCCCAACTAGCTGGGCACTTTTGGG
GAATTTGATGGATGTAAGCAAGCTGTCCATCTGTGGAGAGGAGTACTTTGGAACTAGTTCAGACCACATCTGAGAGAAAG
ATGGACTGTGGGCTTTCCTAGCACGGCTCTACATTTTGGCCATCCACAAACAGAGCCTGGAGGATATCCTCAAAGACAAC
TGGTAGAAGCTTGGTTGGAACTTCTTTACCAGGTATGACCACGAGGAGGTGGAAACTGAGGGTGCAAGCACAATGATAAA
GGACCTGTAGGCTCTGATGCTGGACCACTCCTTTGTGGGGAAGCAGTTCTCAGCAAAAGATAAACTCTACCTGTGGAGAA
AGCTGATAACTTTGAATAGAGTGACTCAGTAGATGAAAGCATTTCAAAAAACCGAGGCTTGCAGCTTACTTTTGCAGATG
GTTCTTGTATCATCTTCGGACTGAGTGGCACTGGGCGTCCAGGGGCTACCATCTGGCTATATATTGATAGCTACAAGAAT
GATGTTGCCAAGATCAACCAGGACCCC

ORF - retro_mmus_2075 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 75.97 %
Parental protein coverage: 52.59 %
Number of stop codons detected: 6
Number of frameshifts detected 3


Retrocopy - Parental Gene Alignment:

ParentalVVGPYVKKILCEELGAPANSAVNCVPLEDFGGH-HPDPNLTYAADLVETMKSGEHDFGAAFDGDGDRNMI
.VG.YVKKI.CE.LG...NS.VNC.PL.DFGGH..PDPNLTY...LVETM.SGEHDF..AFDGDGD.NMI
RetrocopyLVGLYVKKIFCE*LGVLENSVVNCAPLDDFGGH>QPDPNLTY---LVETMNSGEHDFRTAFDGDGDQNMI
ParentalLGKHGFFVNPSDSVAVIAANIFSIPYFQQTGVRGFARSMPTSGALDRVANATKIALYETP-TGWKFFGNL
LG.HGFFVNPSDSVAVIAANIFSIPYF.Q.G...FA.S.PTSGAL..VANATKIAL.ETP.T.W...GNL
RetrocopyLGMHGFFVNPSDSVAVIAANIFSIPYFHQIGICDFA*SIPTSGALNWVANATKIALGETP>TSWALLGNL
ParentalMDASKLSLCGEESFGTGSDHIREKDGLWAVLAWLSILATRKQSVEDILKDHWQKFGRNFFTRYDYEEVEA
MD.SKLS.CGEE.FGT.SDHI.EKDGLWA.LA.L.ILA..KQS.EDILKD.W.K.G.NFFTRYD.EEVE.
RetrocopyMDVSKLSICGEEYFGTSSDHI*EKDGLWAFLARLYILAIHKQSLEDILKDNW*KLGWNFFTRYDHEEVET
ParentalEGANKMMKDLEALMLDRSFVGKQFSANDKVY-TVEKADNFEYSDPVDGSISKNQGLRLIFADGSRIIFRL
EGA..M.KDL.ALMLD.SFVGKQFSA.DK.Y..VEKADNFE.SD.VD.SISKN.GL.L.FADGS.IIF.L
RetrocopyEGASTMIKDL*ALMLDHSFVGKQFSAKDKLY<PVEKADNFE*SDSVDESISKNRGLQLTFADGSCIIFGL
ParentalSGTGSAGATIRLYIDSYEKDVAKINQDP
SGTG..GATI.LYIDSY..DVAKINQDP
RetrocopySGTGRPGATIWLYIDSYKNDVAKINQDP

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






RNA-Seq - click to see more details

(Hint: click retrocopy or parental gene accession number on the plot's legend, to show / hide expression level values)

Expression validation based on RNA-Seq data:
Library Retrocopy expression Parental gene expression
SRP007412_brain 0 .00 RPM 47 .47 RPM
SRP007412_cerebellum 0 .00 RPM 60 .14 RPM
SRP007412_heart 0 .00 RPM 196 .49 RPM
SRP007412_kidney 0 .00 RPM 110 .11 RPM
SRP007412_liver 0 .00 RPM 207 .79 RPM
SRP007412_testis 0 .05 RPM 7 .09 RPM

ChIP-Seq - click to see more details

RNA Polymerase II actvity near the 5' end of retro_mmus_2075 was not detected

EST - click to see more details

No EST(s) were mapped for retro_mmus_2075 retrocopy.

TSS - click to see more details

No TSS is located nearby retro_mmus_2075 retrocopy 5' end.

Lab - click to see more details

retro_mmus_2075 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_mmus_2075 has 0 orthologous retrocopies within eutheria group .

Parental genes homology:
Parental genes homology involve 1 parental gene, and 1 retrocopy.

Species Parental gene accession Retrocopies number
Mus musculus ENSMUSG00000025791 1 retrocopy
retro_mmus_2075 ,


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