RetrogeneDB ID:

retro_rnor_1024

Retrocopy
location
Organism:Rat (Rattus norvegicus)
Coordinates:14:97413396..97413889(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:Glo1
Ensembl ID:ENSRNOG00000000541
Aliases:None
Description:Lactoylglutathione lyase [Source:UniProtKB/Swiss-Prot;Acc:Q6P7Q4]


Retrocopy-Parental alignment summary:






>retro_rnor_1024
GAGCCACAACTCTCATCCAGCAGTCTCACAGATGAGGAGACCCTCAGCTGCTGCTCTGATTGAGTCTCCAACACCAAGCA
TTTTCTACTGCAACAAACGATGCTAAGAGTTAGTGATCCGGAGTCCCTGAGTTTTCATAGGAGGATTCTGGGACTGACTT
GACTCCAGAAGTTTGATTTTCCTACTATGAAGTTTTCACTCTTATTTCTTAGTTTATCAATGTAAGAATGACATCCCCAA
AGATAAGAATGAAAGGATAGCAAAGATATTCTACAGAAAAGCCACACTTGAGTTGACACACAACTGGAGATCTGAAGATG
ACGAGACTCAGAGTTACCACAGTGGCTACTCAGACCCTCAGGGGTTTGGTCACATTAGGATTGCTGTTCATGATGCCAAT
GGTGCATGTAAGATATATGAAGAACTGGTAGTCACATGTATGAAGAAACCCAAGGATGGTAAAATGAAAGGTCTGGCATT
TGTTCAAGATCCT

ORF - retro_rnor_1024 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 71.69 %
Parental protein coverage: 89.67 %
Number of stop codons detected: 2
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalEPQPASSGLTDEAALSCCSDPDPSTKDFLLQQTMLRIKDPKKSLDFYTRVLGLTLLQKLDFPSMKFSL-Y
EPQ..SS.LTDE..LSCCSD....TK.FLLQQTMLR..DP..SL.F..R.LGLT.LQK.DFP.MKFSL.Y
RetrocopyEPQLSSSSLTDEETLSCCSD*VSNTKHFLLQQTMLRVSDPE-SLSFHRRILGLT*LQKFDFPTMKFSL>Y
ParentalFLAYEDKNDIPKDKTERTAWAFSRKATLELTHNWGTEDDETQSYHNGNSDPRGFGHIGIAVPDVYEACKR
FL.Y..KNDIPKDK.ER.A..F.RKATLELTHNW..EDDETQSYH.G.SDP.GFGHI.IAV.D...ACK.
RetrocopyFLVYQCKNDIPKDKNERIAKIFYRKATLELTHNWRSEDDETQSYHSGYSDPQGFGHIRIAVHDANGACKI
ParentalFEELGVKFVKKPDDGKMKGLAFVQDP
.EEL.V...KKP.DGKMKGLAFVQDP
RetrocopyYEELVVTCMKKPKDGKMKGLAFVQDP

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 .80 RPM
SRP017611_kidney 0 .00 RPM 58 .83 RPM
SRP017611_liver 0 .00 RPM 47 .13 RPM
Rattus norvegicus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_rnor_1024 retrocopy.
Rattus norvegicus was not studied using FANTOM5 data.
retro_rnor_1024 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_rnor_1024 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 12 parental genes, and 20 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000127032 retrocopies
Cavia porcellus ENSCPOG000000100501 retrocopy
Dasypus novemcinctus ENSDNOG000000195986 retrocopies
Dipodomys ordii ENSDORG000000063691 retrocopy
Macropus eugenii ENSMEUG000000059781 retrocopy
Mus musculus ENSMUSG000000240261 retrocopy
Otolemur garnettii ENSOGAG000000079452 retrocopies
Rattus norvegicus ENSRNOG00000000541 2 retrocopies
retro_rnor_1012, retro_rnor_1024 ,
Sus scrofa ENSSSCG000000277781 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000058211 retrocopy
Tupaia belangeri ENSTBEG000000143861 retrocopy
Tursiops truncatus ENSTTRG000000046641 retrocopy



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