RetrogeneDB ID:

retro_btau_577

Retrocopy
location
Organism:Cow (Bos taurus)
Coordinates:15:39591872..39592245(+)
Located in intron of:ENSBTAG00000009061
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RPS24
Ensembl ID:ENSBTAG00000013264
Aliases:None
Description:40S ribosomal protein S24 [Source:UniProtKB/Swiss-Prot;Acc:Q56JU9]


Retrocopy-Parental alignment summary:






>retro_btau_577
ATGAATGAAACAGTAATTCTCCAGACCAGGAAGTTCATGACCAACCAAAAACAAATTGTCATCAATATCCTTCACCCTGG
GAAGGCAAAAGTAGCTAAGATAGAAATTTAGGTAAAACTTGCCAAAATGTACAAGACCACACCAGATGTCATCTTAGAAT
TTGGATTCAGAATCCATTTTGGTAGTGGCAAGACAACTAGCTTTGGCAGGTTTTACTATTCCTTAGATTACAGAAAGAAA
AACGAACTCAAACACTGACATGCAAGATATGGCCTGTATAAGAAAAAACCTCAAGAAAACAGCAAAAGGAACGAAGAACA
GAATGCAGGAAGTCAAGAGGACTGCAAAGGCCAACCTTGGTGCTGGCAAAAAG

ORF - retro_btau_577 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 70.45 %
Parental protein coverage: 100. %
Number of stop codons detected: 2
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalMNDTVTIRTRKFMTNRLLQRKQMVIDVLHPGKATVPKTEIREKLAKMYKTTPDVIFVFGFRTHFGGGKTT
MN.TV...TRKFMTN.....KQ.VI..LHPGKA.V.K.EI..KLAKMYKTTPDVI..FGFR.HFG.GKTT
RetrocopyMNETVILQTRKFMTNQ----KQIVINILHPGKAKVAKIEI*VKLAKMYKTTPDVILEFGFRIHFGSGKTT
ParentalGFGMIYDSLDYAKKNEPKHRLARHGLYEKKK-TSRKQRKER-KNRMKKVRGTAKANVGAGKK
.FG..Y.SLDY.KKNE.KH..AR.GLY.KKK.TSRKQ.KER.KNRM..V..TAKAN.GAGKK
RetrocopySFGRFYYSLDYRKKNELKH*HARYGLY-KKK<TSRKQQKER<KNRMQEVKRTAKANLGAGKK

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
ERP005899_liver 0 .00 RPM 437 .33 RPM
ERP005899_muscle 0 .00 RPM 1212 .35 RPM
SRP017611_brain 0 .00 RPM 187 .15 RPM
SRP017611_kidney 0 .00 RPM 336 .31 RPM
SRP017611_liver 0 .00 RPM 240 .49 RPM
SRP030211_testis 0 .05 RPM 173 .01 RPM
Bos taurus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_btau_577 retrocopy.
Bos taurus was not studied using FANTOM5 data.
retro_btau_577 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_btau_577 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 11 parental genes, and 46 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG00000013264 9 retrocopies
Felis catus ENSFCAG000000008493 retrocopies
Homo sapiens ENSG000001383263 retrocopies
Gadus morhua ENSGMOG000000125951 retrocopy
Loxodonta africana ENSLAFG0000002787810 retrocopies
Myotis lucifugus ENSMLUG000000241021 retrocopy
Mustela putorius furoENSMPUG000000037781 retrocopy
Oryctolagus cuniculus ENSOCUG000000124721 retrocopy
Otolemur garnettii ENSOGAG000000110053 retrocopies
Pan troglodytes ENSPTRG0000000266610 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000130004 retrocopies



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