RetrogeneDB ID:

retro_btau_1750

Retrocopy
location
Organism:Cow (Bos taurus)
Coordinates:X:79176320..79177247(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:PPP2CB
Ensembl ID:ENSBTAG00000009245
Aliases:None
Description:Serine/threonine-protein phosphatase 2A catalytic subunit beta isoform [Source:UniProtKB/Swiss-Prot;Acc:Q0P594]


Retrocopy-Parental alignment summary:






>retro_btau_1750
ATGGACGACAAGGCGTTCACTAAGGACCTGGACCAGTGGGTCGAGCAGCTGAATGAGTGTAAACAGCTCAACGAGAACCA
AGTCCGGACGCTCTGTGAAAAGGCTAAGGAAATTTTAACAAAAGAATCAAATGTACAGGAGGTCCGTTGTCCTGTCACCA
TCTGTGGAAATGTGCATGGCCAATTCCATGACCTTATGGAACTCTTCAGAATCGGCGGGAAGTCGCCAGACACAAACTAT
CTGTTCATGGGCGACTATGTAGACAGAGGTTATTATTCTGTGGAAACGGTAACTCTTCTTGTGGCATTAAAGGTGCGTTA
TCCAGAGCACATTACAATACTGAGAGGAAACCACGAAAGCCGACAAATTACCCAAGTTTATGGCTTTTATGACGAATGTC
TGTGAAAGTATGGAAATGCCAATGTTTGGAAATATTTTACAGATCTCTTTGATTATCTGCCACTTACAGCTTTAGTAGAT
GGACAGATATTCTGCCTCCATGGTGGCGTCTCTCCATCCATAGATACACTGGATCATATAAGAGCCCTGGATCGTTTACA
AGAAGTTCCACATGAGGGCCCCATGTGTGATCTCTTATGGTCAGATCCAGATGATCGTGGTGGGTGGGGTATTTCACCAC
GTGGTGCTGGCTACACATTTGGACAAGATATTTCTGAAACGTTTAACCATGCTAATGGTCTCACACTGGTTTCTCGTGCT
CACCAACTTGTAATGGAGGGATACAATTGGTGTCATGATCGGAACGTGGTTACCATTTTCAGTGCACCCAATTACTGTTA
TCGTTGTGGGAACCAGGCTGCTATCATGGAATTAAATGACACTTTGAAATATTCCTTCCTTCAGTTTGACCCAGCACCTC
ATCGTGGAGAGCCTCATGTGACCCGGCGCACCCCAGACTACTTCCTG

ORF - retro_btau_1750 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 97.73 %
Parental protein coverage: 100. %
Number of stop codons detected: 1
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMDDKAFTKDLDQWVEQLNECKQLNENQVRTLCEKAKEILTKESNVQEVRCPVTVCGDVHGQFHDLMELFR
MDDKAFTKDLDQWVEQLNECKQLNENQVRTLCEKAKEILTKESNVQEVRCPVT.CG.VHGQFHDLMELFR
RetrocopyMDDKAFTKDLDQWVEQLNECKQLNENQVRTLCEKAKEILTKESNVQEVRCPVTICGNVHGQFHDLMELFR
ParentalIGGKSPDTNYLFMGDYVDRGYYSVETVTLLVALKVRYPERITILRGNHESRQITQVYGFYDECLRKYGNA
IGGKSPDTNYLFMGDYVDRGYYSVETVTLLVALKVRYPE.ITILRGNHESRQITQVYGFYDECL.KYGNA
RetrocopyIGGKSPDTNYLFMGDYVDRGYYSVETVTLLVALKVRYPEHITILRGNHESRQITQVYGFYDECL*KYGNA
ParentalNVWKYFTDLFDYLPLTALVDGQIFCLHGGLSPSIDTLDHIRALDRLQEVPHEGPMCDLLWSDPDDRGGWG
NVWKYFTDLFDYLPLTALVDGQIFCLHGG.SPSIDTLDHIRALDRLQEVPHEGPMCDLLWSDPDDRGGWG
RetrocopyNVWKYFTDLFDYLPLTALVDGQIFCLHGGVSPSIDTLDHIRALDRLQEVPHEGPMCDLLWSDPDDRGGWG
ParentalISPRGAGYTFGQDISETFNHANGLTLVSRAHQLVMEGYNWCHDRNVVTIFSAPNYCYRCGNQAAIMELDD
ISPRGAGYTFGQDISETFNHANGLTLVSRAHQLVMEGYNWCHDRNVVTIFSAPNYCYRCGNQAAIMEL.D
RetrocopyISPRGAGYTFGQDISETFNHANGLTLVSRAHQLVMEGYNWCHDRNVVTIFSAPNYCYRCGNQAAIMELND
ParentalTLKYSFLQFDPAPRRGEPHVTRRTPDYFL
TLKYSFLQFDPAP.RGEPHVTRRTPDYFL
RetrocopyTLKYSFLQFDPAPHRGEPHVTRRTPDYFL

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 62 .87 RPM
ERP005899_muscle 0 .05 RPM 30 .67 RPM
SRP017611_brain 0 .05 RPM 52 .99 RPM
SRP017611_kidney 0 .00 RPM 30 .35 RPM
SRP017611_liver 0 .00 RPM 18 .65 RPM
SRP030211_testis 0 .05 RPM 35 .03 RPM
Bos taurus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_btau_1750 retrocopy.
Bos taurus was not studied using FANTOM5 data.
retro_btau_1750 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_btau_1750 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 9 parental genes, and 15 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000016151 retrocopy
Bos taurus ENSBTAG000000004691 retrocopy
Bos taurus ENSBTAG00000009245 3 retrocopies
retro_btau_1199, retro_btau_1750 , retro_btau_704,
Dasypus novemcinctus ENSDNOG000000109061 retrocopy
Echinops telfairi ENSETEG000000181234 retrocopies
Felis catus ENSFCAG000000251391 retrocopy
Monodelphis domestica ENSMODG000000190012 retrocopies
Otolemur garnettii ENSOGAG000000024881 retrocopy
Tursiops truncatus ENSTTRG000000001021 retrocopy



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