RetrogeneDB ID:

retro_btau_997

Retrocopy
location
Organism:Cow (Bos taurus)
Coordinates:22:49583607..49584150(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RPS7
Ensembl ID:ENSBTAG00000016224
Aliases:None
Description:40S ribosomal protein S7 [Source:UniProtKB/Swiss-Prot;Acc:A6H769]


Retrocopy-Parental alignment summary:






>retro_btau_997
ATGTTCATTTCCAGGGCAAAGATCATGAAGCCCAATGGTGAGAAGCTGGACAAGTTCTGGTCTGAAATCTTCTACACCCT
CCTAGAGTTGTAGATGAACTCAGACCTGAAAACTCAGCTGCGGGAGCTGAACATCACAGCTGCCAAGGCCACTGAAGTTA
GTGTTGGTCAAAAAGCTCTTTTAATCTTTGTTTTTATTCCTCAAATGAAATATTTCCAAAAATTCCAGGTCTGACTGCTG
CGTGACTTGGAGAAGTTCAGCAGGAAACACGTCGTCTGTTGCTCAGAGAAGAATTCTGCCTAAGCCAACTCAAAAAACCA
TACAAAAAATAAGCAAAAGCATCCCAGGAGCTGCAGTCTGACAACCGTGCATGATGTAATCCTGGAAGATTTGGTTTCCC
CAAGTGAGATTACAGGCAAGAGAATCTGCAAGAAACTGAATGGCAGCTGGCTCATAAAGGTTCATTTGGATAAAACACAG
CAGAACAACGTGGAACACAAAGTTGAAACATTTTCTGGTGTCTGTAAGAAGCTCATGGGTGAA

ORF - retro_btau_997 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 67.21 %
Parental protein coverage: 94.33 %
Number of stop codons detected: 3
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMFSSSAKIVKPNGEKPDEFESGISQALLELEMNSDLKAQLRELNITAAKEIEVGGGRKAIIIFVPVPQLK
MF.S.AKI.KPNGEK.D.F.S.I...LLEL.MNSDLK.QLRELNITAAK..EV..G.KA..IFV..PQ.K
RetrocopyMFISRAKIMKPNGEKLDKFWSEIFYTLLEL*MNSDLKTQLRELNITAAKATEVSVGQKALLIFVFIPQMK
ParentalSFQKIQVRLVRELEKKFSGKHVVFIAQRRILPKPTRKSRTKNKQKRPRSRTLTAVHDAILEDLVFPSEIV
.FQK.QV.L.R.LE.KFS.KHVV................TKNKQK.PRS..LT.VHD.ILEDLV.PSEI.
RetrocopyYFQKFQV*LLRDLE-KFSRKHVVCCSEKNSA*ANSK-NHTKNKQKHPRSCSLTTVHDVILEDLVSPSEIT
ParentalGKRIRVKLDGSRLIKVHLDKAQQNNVEHKVETFSGVYKKLTGK
GKRI..KL.GS.LIKVHLDK.QQNNVEHKVETFSGV.KKL.G.
RetrocopyGKRICKKLNGSWLIKVHLDKTQQNNVEHKVETFSGVCKKLMGE

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 101 .22 RPM
ERP005899_muscle 0 .00 RPM 1274 .70 RPM
SRP017611_brain 0 .09 RPM 159 .24 RPM
SRP017611_kidney 0 .00 RPM 356 .76 RPM
SRP017611_liver 0 .00 RPM 195 .26 RPM
SRP030211_testis 0 .87 RPM 352 .76 RPM
Bos taurus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_btau_997 retrocopy.
Bos taurus was not studied using FANTOM5 data.
retro_btau_997 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_btau_997 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 15 parental genes, and 66 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG00000016224 5 retrocopies
Canis familiaris ENSCAFG000000032631 retrocopy
Callithrix jacchus ENSCJAG000000164622 retrocopies
Cavia porcellus ENSCPOG000000097952 retrocopies
Felis catus ENSFCAG000000232432 retrocopies
Gorilla gorilla ENSGGOG0000002309513 retrocopies
Loxodonta africana ENSLAFG0000001508711 retrocopies
Myotis lucifugus ENSMLUG000000061211 retrocopy
Mus musculus ENSMUSG000000614772 retrocopies
Oryctolagus cuniculus ENSOCUG000000085072 retrocopies
Otolemur garnettii ENSOGAG000000281651 retrocopy
Pongo abelii ENSPPYG0000002587212 retrocopies
Pan troglodytes ENSPTRG000000116153 retrocopies
Pteropus vampyrus ENSPVAG000000020717 retrocopies
Rattus norvegicus ENSRNOG000000085512 retrocopies



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