RetrogeneDB ID:

retro_rnor_624

Retrocopy
location
Organism:Rat (Rattus norvegicus)
Coordinates:1:182900299..182900633(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:Rnf7
Ensembl ID:ENSRNOG00000011663
Aliases:None
Description:RING-box protein 2 [Source:RefSeq peptide;Acc:NP_001100318]


Retrocopy-Parental alignment summary:






>retro_rnor_624
ATGGCCAACATGGAAGACAGTGAGGAACCCTGCATCTTTTCCTCACCCTCTGGGAGACAGGCTCCAAGGGAGGCTCAAGA
TGTTCTCCCTCAAGAAGTGGACCACAGCAGATGTGTGGAACTGGGACGTTGAGTGCAATACCTGCGCCATCTGCAGGGTC
CAGGTGATGGATACCTGTCTTAGATGTCAAGCTGAAAACAAGCAAGAGGACTAGGCTGTGGTCTGGGGAGAATGTAACCA
CTCCTTCCACAACTGCCGTGTGTCCCTGTGAATGAAACCGAACAATTGCTGCCCTCTGTGTCAGCAGGACTGAGTAGTCC
AAAGAGTCAGCAAA

ORF - retro_rnor_624 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 73.04 %
Parental protein coverage: 100. %
Number of stop codons detected: 3
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalMADVEDGEEPCVLSSHSG-SAGSKSGGD-KMFSLKKWNAVAMWSWDVECDTCAICRVQVMDACLRCQAEN
MA..ED.EEPC..SS.SG...GSK.GG..KMFSLKKW.....W.WDVEC.TCAICRVQVMD.CLRCQAEN
RetrocopyMANMEDSEEPCIFSSPSG<ETGSK-GGS<KMFSLKKWTTADVWNWDVECNTCAICRVQVMDTCLRCQAEN
ParentalKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQDWVVQRIGK
KQED..VVWGECNHSFHNC..SL..K.NN.CPLCQQD.VVQR..K
RetrocopyKQED*AVVWGECNHSFHNCRVSL*MKPNNCCPLCQQD*VVQRVSK

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 .14 RPM 6 .54 RPM
SRP017611_kidney 0 .00 RPM 14 .44 RPM
SRP017611_liver 0 .00 RPM 5 .24 RPM
Rattus norvegicus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_rnor_624 retrocopy.
Rattus norvegicus was not studied using FANTOM5 data.
retro_rnor_624 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_rnor_624 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 19 parental genes, and 42 retrocopies.

Species Parental gene accession Retrocopies number
Canis familiaris ENSCAFG000000076941 retrocopy
Choloepus hoffmanni ENSCHOG000000107423 retrocopies
Callithrix jacchus ENSCJAG000000019912 retrocopies
Dasypus novemcinctus ENSDNOG000000059613 retrocopies
Homo sapiens ENSG000001141251 retrocopy
Gorilla gorilla ENSGGOG000000018291 retrocopy
Microcebus murinus ENSMICG000000013531 retrocopy
Macaca mulatta ENSMMUG000000066482 retrocopies
Monodelphis domestica ENSMODG000000212321 retrocopy
Mus musculus ENSMUSG000000512343 retrocopies
Nomascus leucogenys ENSNLEG000000046463 retrocopies
Otolemur garnettii ENSOGAG000000086591 retrocopy
Pongo abelii ENSPPYG000000141672 retrocopies
Pan troglodytes ENSPTRG000000392481 retrocopy
Rattus norvegicus ENSRNOG00000011663 5 retrocopies
Rattus norvegicus ENSRNOG000000192142 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000149643 retrocopies
Tupaia belangeri ENSTBEG000000029172 retrocopies
Tarsius syrichta ENSTSYG000000077785 retrocopies



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