RetrogeneDB ID:

retro_rnor_1198

Retrocopy
location
Organism:Rat (Rattus norvegicus)
Coordinates:16:67288263..67288572(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:Nme1
Ensembl ID:ENSRNOG00000002693
Aliases:None
Description:Nucleoside diphosphate kinase A [Source:UniProtKB/Swiss-Prot;Acc:Q05982]


Retrocopy-Parental alignment summary:






>retro_rnor_1198
AAGTACTACATTGACCTGAAGGACTGTCCCTTCTTTACTGGCCTTGTGGAGTACATGCACTCAGGACCGGTCATTGCTAT
TGTCTGGGAGTGACTGAATGTTGTGAAGACAGGCGGGGTGATGCTTAGAGAGACCAACCCCACAGGCTCTAAGCCTGGGA
CCGTATGAGGAGACTTTTGCATCCAAGTTGGCAGGGACATTATTCATGGCGGCAGTTCCGTGGAGAGCACAGGGAAGGAG
ATCAGTTTGTGGTTTCAGCCTGAGGAGCTGGTGGACTACAAAAGCTGTGCGTAGGACTGCATTTATGAG

ORF - retro_rnor_1198 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 78.64 %
Parental protein coverage: 67.76 %
Number of stop codons detected: 3
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalEHYIDLKDRPFFSGLVKYMHSGPVVAMVWEGLNVVKTGRVMLGETNPADSKPGTIRGDFCIQVGRNIIHG
..YIDLKD.PFF.GLV.YMHSGPV.A.VWE.LNVVKTG.VML.ETNP..SKPGT..GDFCIQVGR.IIHG
RetrocopyKYYIDLKDCPFFTGLVEYMHSGPVIAIVWE*LNVVKTGGVMLRETNPTGSKPGTV*GDFCIQVGRDIIHG
ParentalSDSVESAEKEISLWFQPEELVDYKSCAQNWIYE
..SVES..KEISLWFQPEELVDYKSCA...IYE
RetrocopyGSSVESTGKEISLWFQPEELVDYKSCA*DCIYE

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 67 .37 RPM
SRP017611_kidney 0 .00 RPM 25 .19 RPM
SRP017611_liver 0 .00 RPM 18 .36 RPM
Rattus norvegicus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_rnor_1198 retrocopy.
Rattus norvegicus was not studied using FANTOM5 data.
retro_rnor_1198 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_rnor_1198 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 12 parental genes, and 34 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000046511 retrocopy
Canis familiaris ENSCAFG000000236287 retrocopies
Gorilla gorilla ENSGGOG000000165261 retrocopy
Monodelphis domestica ENSMODG000000284921 retrocopy
Mustela putorius furoENSMPUG000000155595 retrocopies
Mus musculus ENSMUSG000000912283 retrocopies
Nomascus leucogenys ENSNLEG000000079192 retrocopies
Oryctolagus cuniculus ENSOCUG000000221351 retrocopy
Pan troglodytes ENSPTRG000000094151 retrocopy
Rattus norvegicus ENSRNOG000000026718 retrocopies
Rattus norvegicus ENSRNOG00000002693 3 retrocopies
retro_rnor_1198 , retro_rnor_1600, retro_rnor_704,
Rattus norvegicus ENSRNOG000000491521 retrocopy



Copyright © RetrogeneDB 2014-2017