RetrogeneDB ID:

retro_rnor_2938

Retrocopy
location
Organism:Rat (Rattus norvegicus)
Coordinates:X:73977367..73977756(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:Egln1
Ensembl ID:ENSRNOG00000019773
Aliases:None
Description:Egl nine homolog 1 [Source:UniProtKB/Swiss-Prot;Acc:P59722]


Retrocopy-Parental alignment summary:






>retro_rnor_2938
GGACAACAATAGGCCATGGTTGCTTGTTACCCAGTCAACAGAACATGCTCTAACCATCACGTCAGTAACTCAAATGCAGA
TAGAAGATGCATGACTTGTATGTATTATCTATTTAAATACTGGGACGCCAAGGTAAGTGGAGGTACTCTTCGATTTTTTT
CTAGAAGTCAATGCCTACTTTGCTGGCATTGAACCTAATTTGATAAACTGCTGTTTTTCTTGTGTGATAGGCATAACCCT
CATCAAATACAGTGTGCATACACTACAAGGTGTTTAATTACTCTTTGATATTTTGATGCAGATGAACAAGTGAAGCTAAA
GTAAAATATCTAATAGGCTAGAATGGTGTGAGCTTTGAACTCAAGCAACAATCAGTCAGCAAAAATGTC

ORF - retro_rnor_2938 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 61.65 %
Parental protein coverage: 58.56 %
Number of stop codons detected: 3
Number of frameshifts detected 3


Retrocopy - Parental Gene Alignment:

ParentalGRTKAMVACYPGNGTGYVRHVDNPNGDGRCVTCIYYLNKDWDAKVSGGILRIFP-EGKAQFADIEPK-FD
G...AMVACYP.N.T....HV.N.N.D.RC.TC.YYL.K.WDAKVSGG.LR.F..E..A.FA.IEP..FD
RetrocopyGQQ*AMVACYPVNRTCSNHHVSNSNADRRCMTCMYYLFKYWDAKVSGGTLRFFS>EVNAYFAGIEPN<FD
ParentalRLLFFWSDRRNPHEVQPAYATRYAITVWYFDADERAR-AKVKYLTGEKGVRVELKPNSVSKDV
.LLFF..DR.NPH..Q.AY.TR..IT..YFDADE....AKVKYL.G..GV..ELK..SVSK.V
RetrocopyKLLFFLCDRHNPHQIQCAYTTRCLITL*YFDADEQVK<AKVKYLIG*NGVSFELKQQSVSKNV

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 19 .20 RPM
SRP017611_kidney 0 .00 RPM 28 .05 RPM
SRP017611_liver 0 .00 RPM 6 .72 RPM
Rattus norvegicus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_rnor_2938 retrocopy.
Rattus norvegicus was not studied using FANTOM5 data.
retro_rnor_2938 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_rnor_2938 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 3 parental genes, and 13 retrocopies.

Species Parental gene accession Retrocopies number
Echinops telfairi ENSETEG000000072021 retrocopy
Rattus norvegicus ENSRNOG00000019773 11 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000235701 retrocopy



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