RetrogeneDB ID:

retro_btau_1707

Retrocopy
location
Organism:Cow (Bos taurus)
Coordinates:9:67929103..67929429(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSBTAG00000046230
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:NME1
Ensembl ID:ENSBTAG00000004651
Aliases:NME1, NBR-A, NBR-B, NME1-1
Description:nucleoside diphosphate kinase A 1 [Source:RefSeq peptide;Acc:NP_991387]


Retrocopy-Parental alignment summary:






>retro_btau_1707
TCTGATGAACACTTTGAGCAGCAATATGTTGCTCTGAAAGACCGCTCATTCTTCCCAGGGCTAGAGAAGTGCATGGACTC
AAGATCAGTTGTGGCCATGGTCTGGAAGGGCCTGGATATGGTTAAGTCAGGGAAGGCTGATGTTTGGGGAGACAACCTGG
CAGACTCTAAGTTGGGCACCATTCTCAGGACCTCTGCACTCAAGTTGGCAGGAACATCATTTGTGGTAGTAATTCAGTAG
AAAGTCCTGAAAAAGAAACCAGCCTACGGTTTAAGCTGGAAGAATTGGTTGATGACATGTCTTGTGCTTATGACTGGATC
CATGAA

ORF - retro_btau_1707 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 58.93 %
Parental protein coverage: 99.09 %
Number of stop codons detected: 0
Number of frameshifts detected 3


Retrocopy - Parental Gene Alignment:

ParentalSEDLLKEHYIDLKDRPFFAGLVKYMHSGPVVAMVWEGLNVVKT-GRVMLGET-NPADSKPGTI-RGDFCI
S.......Y..LKDR.FF.GL.K.M.S..VVAMVW.GL..VK..GR.M.GET.N.ADSK.GTI...D.C.
RetrocopySDEHFEQQYVALKDRSFFPGLEKCMDSRSVVAMVWKGLDMVKS>GRLMFGET<NLADSKLGTI<SQDLCT
ParentalQVGRNIIHGSDSVESAEKEIALWFHPEELVNYKNCAQNWIYE
QVGRNII.GS.SVES.EKE..L.F..EELV....CA..WI.E
RetrocopyQVGRNIICGSNSVESPEKETSLRFKLEELVDDMSCAYDWIHE

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 11 .25 RPM
ERP005899_muscle 0 .00 RPM 36 .05 RPM
SRP017611_brain 0 .00 RPM 8 .72 RPM
SRP017611_kidney 0 .00 RPM 15 .06 RPM
SRP017611_liver 0 .00 RPM 24 .01 RPM
SRP030211_testis 0 .00 RPM 13 .86 RPM
Bos taurus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_btau_1707 retrocopy.
Bos taurus was not studied using FANTOM5 data.
retro_btau_1707 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_btau_1707 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 11 parental genes, and 26 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG00000004651 1 retrocopy
retro_btau_1707 ,
Bos taurus ENSBTAG000000471861 retrocopy
Canis familiaris ENSCAFG000000236287 retrocopies
Gorilla gorilla ENSGGOG000000165261 retrocopy
Monodelphis domestica ENSMODG000000284921 retrocopy
Mustela putorius furoENSMPUG000000155595 retrocopies
Mus musculus ENSMUSG000000912283 retrocopies
Nomascus leucogenys ENSNLEG000000079192 retrocopies
Oryctolagus cuniculus ENSOCUG000000221351 retrocopy
Pan troglodytes ENSPTRG000000094151 retrocopy
Rattus norvegicus ENSRNOG000000026933 retrocopies



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