RetrogeneDB ID:

retro_btau_50

Retrocopy
location
Organism:Cow (Bos taurus)
Coordinates:21:55609555..55610110(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSBTAG00000000425
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:RPL17
Ensembl ID:ENSBTAG00000022902
Aliases:RPL17, RPL17L
Description:60S ribosomal protein L17 [Source:UniProtKB/Swiss-Prot;Acc:Q3T025]


Retrocopy-Parental alignment summary:






>retro_btau_50
ATGGTGCGCTATTCACTTGACCCAGAAAACCCCACAAAATCATGCAAATCAAGAGGTTCAAATCTTCGTGTTCATTTTAA
GAACACTCGTGAAACTGCCCAGGCCATAAAGGGTATGCATATCCGAAAAGCCACCAAGTATCTGAAGGATGTCACTTTAA
AGAAGCAATGTGTGCCATTCCGTCGTTACAACGGTGGAGTTGGTAGGTGTGCACAGGCTAAACAGTGGGGCTGGACGCAG
GGTCGGTGGCCCAAAAAGAGTGCTGAATTTTTACTACACATGCTCAAAAATGCAGAGAGTAATGCTGAACTTAAGGGCTT
AGATGTAGATTCTCTGGTCATTGAGCACATCCAAGTGAACAAAGCCCCCAAGATGCGGCGCAGGACTTACAGAGCTCACG
GTCGGATCAACCCCTACATGAGCTCTCCATGCCACATTGAGATGATCCTTACTGAAAAAGAACAGATTGTTCCTAAACCA
GAAGAGGAGGTTGCACAGAAGAAAAAGATATCCCAGAAGAAACTGAAGAAACAAAAACTTATGGCCCGGGAATAA

ORF - retro_btau_50 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 100. %
Parental protein coverage: 100. %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMVRYSLDPENPTKSCKSRGSNLRVHFKNTRETAQAIKGMHIRKATKYLKDVTLKKQCVPFRRYNGGVGRC
MVRYSLDPENPTKSCKSRGSNLRVHFKNTRETAQAIKGMHIRKATKYLKDVTLKKQCVPFRRYNGGVGRC
RetrocopyMVRYSLDPENPTKSCKSRGSNLRVHFKNTRETAQAIKGMHIRKATKYLKDVTLKKQCVPFRRYNGGVGRC
ParentalAQAKQWGWTQGRWPKKSAEFLLHMLKNAESNAELKGLDVDSLVIEHIQVNKAPKMRRRTYRAHGRINPYM
AQAKQWGWTQGRWPKKSAEFLLHMLKNAESNAELKGLDVDSLVIEHIQVNKAPKMRRRTYRAHGRINPYM
RetrocopyAQAKQWGWTQGRWPKKSAEFLLHMLKNAESNAELKGLDVDSLVIEHIQVNKAPKMRRRTYRAHGRINPYM
ParentalSSPCHIEMILTEKEQIVPKPEEEVAQKKKISQKKLKKQKLMARE
SSPCHIEMILTEKEQIVPKPEEEVAQKKKISQKKLKKQKLMARE
RetrocopySSPCHIEMILTEKEQIVPKPEEEVAQKKKISQKKLKKQKLMARE

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 2 .96 RPM 46 .07 RPM
ERP005899_muscle 14 .36 RPM 973 .33 RPM
SRP017611_brain 1 .19 RPM 59 .43 RPM
SRP017611_kidney 1 .78 RPM 130 .81 RPM
SRP017611_liver 0 .60 RPM 47 .12 RPM
SRP030211_testis 1 .53 RPM 81 .13 RPM
Bos taurus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_btau_50 retrocopy.
Bos taurus was not studied using FANTOM5 data.
retro_btau_50 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_btau_50 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 21 parental genes, and 478 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG00000022902 5 retrocopies
Choloepus hoffmanni ENSCHOG0000000787250 retrocopies
Echinops telfairi ENSETEG0000001132210 retrocopies
Homo sapiens ENSG000002154721 retrocopy
Latimeria chalumnae ENSLACG000000088351 retrocopy
Macropus eugenii ENSMEUG0000001670926 retrocopies
Microcebus murinus ENSMICG0000001710214 retrocopies
Myotis lucifugus ENSMLUG0000002555422 retrocopies
Myotis lucifugus ENSMLUG0000002926436 retrocopies
Macaca mulatta ENSMMUG0000001883726 retrocopies
Monodelphis domestica ENSMODG0000000353411 retrocopies
Oryctolagus cuniculus ENSOCUG000000124852 retrocopies
Procavia capensis ENSPCAG000000031038 retrocopies
Pongo abelii ENSPPYG0000000915143 retrocopies
Pteropus vampyrus ENSPVAG0000000196976 retrocopies
Rattus norvegicus ENSRNOG0000001868048 retrocopies
Sarcophilus harrisii ENSSHAG0000000306014 retrocopies
Ictidomys tridecemlineatus ENSSTOG0000000519333 retrocopies
Tarsius syrichta ENSTSYG0000000740220 retrocopies
Tursiops truncatus ENSTTRG0000000579731 retrocopies
Vicugna pacos ENSVPAG000000095681 retrocopy



Copyright © RetrogeneDB 2014-2017