RetrogeneDB ID:

retro_rnor_2686

Retrocopy
location
Organism:Rat (Rattus norvegicus)
Coordinates:9:52603580..52604030(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:Plp2
Ensembl ID:ENSRNOG00000039496
Aliases:Plp2, A4-LSB
Description:Proteolipid protein 2 [Source:UniProtKB/Swiss-Prot;Acc:Q6P742]


Retrocopy-Parental alignment summary:






>retro_rnor_2686
ATGGCGGACTCTGAGCGTCTCTCGGCTCCCGGCTGCTGGTTAGCCTGCACCAGCTTCTCGCGCAGCAAAAAGGGAATTCT
CCTGTTTGCTGAGATTATACTGTGCCTGGTGATTTTGATTTGCTTCAGTGCGTCTACATCGGCCTACTCCTCCCTGTTGG
CGATTGAGATGATCTTTGTTGCTGTCTTATTTGTCTTCTACGTGTGTCACCTGCACTCCAAGATATCATTCATCAGTTGG
CCTTGGACCGATTTCTTCAGATCCCTCATAGCCATCCTGTACCTGATCACTTCCATTGTTGTCCTTGTAGAAGGAAGAGG
CAGCTCCATATTCGTCGCTGGGGTGCTGGGCTTGTTGGCTACATTGCTCTTTGGTTATGATGCATACATCACCTTCCCTC
TAAAGCAGCAAAGACATACAGCATCTCCTACTGACCCCACAAATGGCCCA

ORF - retro_rnor_2686 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 92.05 %
Parental protein coverage: 100. %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMADSERLSAPGCWLACTSFSRTKKGILLFAEIILCLVILICFSASTSAYSSLSVIEMIFAAVLFVFYMCD
MADSERLSAPGCWLACTSFSR.KKGILLFAEIILCLVILICFSASTSAYSSL..IEMIF.AVLFVFY.C.
RetrocopyMADSERLSAPGCWLACTSFSRSKKGILLFAEIILCLVILICFSASTSAYSSLLAIEMIFVAVLFVFYVCH
ParentalLHSKISFINWPWTDFFRSLIAAILYLITSIVVLVEGRGSSKIVAGVLGLLATLLFGYDAYITFPLKQQRH
LHSKISFI.WPWTDFFRSLI.AILYLITSIVVLVEGRGSS..VAGVLGLLATLLFGYDAYITFPLKQQRH
RetrocopyLHSKISFISWPWTDFFRSLI-AILYLITSIVVLVEGRGSSIFVAGVLGLLATLLFGYDAYITFPLKQQRH
ParentalTAAPTDPTDGP
TA.PTDPT.GP
RetrocopyTASPTDPTNGP

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






(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
SRP017611_brain 0 .00 RPM 1 .22 RPM
SRP017611_kidney 0 .00 RPM 12 .28 RPM
SRP017611_liver 0 .00 RPM 2 .42 RPM
Rattus norvegicus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_rnor_2686 retrocopy.
Rattus norvegicus was not studied using FANTOM5 data.
retro_rnor_2686 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_rnor_2686 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 6 parental genes, and 10 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000160933 retrocopies
Canis familiaris ENSCAFG000000157981 retrocopy
Loxodonta africana ENSLAFG000000044831 retrocopy
Mustela putorius furoENSMPUG000000138173 retrocopies
Mus musculus ENSMUSG000000311461 retrocopy
Rattus norvegicus ENSRNOG00000039496 1 retrocopy
retro_rnor_2686 ,



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