RetrogeneDB ID:

retro_rnor_472

Retrocopy
location
Organism:Rat (Rattus norvegicus)
Coordinates:1:114761002..114761450(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:Ccdc137
Ensembl ID:ENSRNOG00000048712
Aliases:None
Description:coiled-coil domain containing 137 [Source:MGI Symbol;Acc:MGI:1914541]


Retrocopy-Parental alignment summary:






>retro_rnor_472
AAGAACCAAGCCACTCTGCAGCCAAAGGTGCAGGCAGCTCCCAAGAAGGAGAAGTCTAAGCCGAAGAAAGCGTTCCAGAA
GCGACGACTTGAAAAGGCCCAGAAGAAAAATGAAGCAAGAGCAGTGGACAGATTGGAGCAGGAGTTGCTAAAAGATACTG
TGAAGTTTGGAGAAGTTGTGCAGCAGCCCCCCGGAGCTGACAGTTTAGCCTAGAAGGAGCACAAGCAGAGACGCACCTGG
GAAGAAATCACTAATACTGAAGATGCTTTCGGGCCCTGGTAGTGTGCCCCCGGCTCCAGCCACCTCACTGGCGCGCCAGT
GGACCCTGGGGGAAGAGCTGAAACGGGCTGTGCAGGCTTACAGAGTCCTGAAGAAGCTGTATGGACAGGAAGTGACACCT
GCATTGCCATCAGGCAGCTCTTCCCAGAGGCAGCTCCAGGCTTGTCTA

ORF - retro_rnor_472 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 85.33 %
Parental protein coverage: 51.56 %
Number of stop codons detected: 1
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalKNQATRQPEVQAAPKKEKSERKKAFQKRRLEKAQKKKEARAVDRLEQELLKDTVKFGEVVLQPP-ELTVQ
KNQAT.QP.VQAAPKKEKS..KKAFQKRRLEKAQKK.EARAVDRLEQELLKDTVKFGEVV.QPP.ELTV.
RetrocopyKNQATLQPKVQAAPKKEKSKPKKAFQKRRLEKAQKKNEARAVDRLEQELLKDTVKFGEVVQQPP>ELTV*
ParentalPRRSTSRDAPGKKSLMLKMLLGPGGVSPAPATSLARQRILGEERERAVQAYRALKKLHRQEVTPAQPPGS
PRRSTSRDAPGKKSL.LKML.GPG.V.PAPATSLARQ..LGEE..RAVQAYR.LKKL..QEVTPA.P.GS
RetrocopyPRRSTSRDAPGKKSLILKMLSGPGSVPPAPATSLARQWTLGEELKRAVQAYRVLKKLYGQEVTPALPSGS
ParentalSSQRQPQACL
SSQRQ.QACL
RetrocopySSQRQLQACL

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 12 .94 RPM
SRP017611_kidney 0 .00 RPM 10 .33 RPM
SRP017611_liver 0 .00 RPM 6 .25 RPM
Rattus norvegicus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_rnor_472 retrocopy.
Rattus norvegicus was not studied using FANTOM5 data.
retro_rnor_472 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_rnor_472 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 10 parental genes, and 12 retrocopies.

Species Parental gene accession Retrocopies number
Erinaceus europaeus ENSEEUG000000148781 retrocopy
Homo sapiens ENSG000001852981 retrocopy
Gorilla gorilla ENSGGOG000000093331 retrocopy
Macaca mulatta ENSMMUG000000088311 retrocopy
Monodelphis domestica ENSMODG000000027131 retrocopy
Mus musculus ENSMUSG000000499571 retrocopy
Nomascus leucogenys ENSNLEG000000138303 retrocopies
Pongo abelii ENSPPYG000000087411 retrocopy
Pan troglodytes ENSPTRG000000097671 retrocopy
Rattus norvegicus ENSRNOG00000048712 1 retrocopy
retro_rnor_472 ,



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