RetrogeneDB ID:

retro_btau_73

Retrocopy
location
Organism:Cow (Bos taurus)
Coordinates:24:35374550..35374943(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSBTAG00000019199
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:PLP2
Ensembl ID:ENSBTAG00000016093
Aliases:None
Description:Proteolipid protein 2 [Source:UniProtKB/Swiss-Prot;Acc:Q6Y1E2]


Retrocopy-Parental alignment summary:






>retro_btau_73
ATGGAAGATTTCCAGCGCAGCAGCTGCACTACCTTCCTATGCACCCAAAAGGGAATGCTTCTGTTTGCCGAGATTATATT
GTGCCTTGTGATTCTGACCCTCTACGGTGTCTCAACATCAGGCTATATCTCTCTGTCGCTGATTGAATTGATCCTAGCTA
TTATCTTCTTTATCATCTACACATGCGACCTGCACACCAAGATACAATTCATTCACTGGCCTTGGACTGATTTCTTCCGA
TCACTCATAGCAGCCATCATCTACCTGATCACCTCCATTATTGTACTTGTTGAGAGAGGATATCGCTCCAGAATCGTTGC
AGGGGTACTCGGCCTAATCGCCACAGCCCTTTTTGGCTATGATGCCTCTATTACTTGCCCGATGAGACAATAA

ORF - retro_btau_73 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 68.55 %
Parental protein coverage: 81.58 %
Number of stop codons detected: 0
Number of frameshifts detected: 0


Retrocopy - Parental Gene Alignment:

ParentalAACTSFSRTRKGFLLFAEIILCLVILICFSTSTSGYSFLSVIEMIFAAIFFVVYMCDLHTKIQIINWPWS
..CT.F..T.KG.LLFAEIILCLVIL.....STSGY..LS.IE.I.A.IFF..Y.CDLHTKIQ.I.WPW.
RetrocopySSCTTFLCTQKGMLLFAEIILCLVILTLYGVSTSGYISLSLIELILAIIFFIIYTCDLHTKIQFIHWPWT
ParentalDFFRTLVAAILYLITSIVVLVERGNGSKIAAGALGLCAAGLFGYDAYITFPLRQ
DFFR.L.AAI.YLITSI.VLVERG..S.I.AG.LGL.A..LFGYDA.IT.P.RQ
RetrocopyDFFRSLIAAIIYLITSIIVLVERGYRSRIVAGVLGLIATALFGYDASITCPMRQ

Legend:
*Stop codon
>Forward frameshift by one nucleotide
<Reverse frameshift by one nucleotide






RNA-Seq - click to see more details

(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 2 .52 RPM
ERP005899_muscle 0 .00 RPM 59 .60 RPM
SRP017611_brain 0 .00 RPM 5 .71 RPM
SRP017611_kidney 0 .00 RPM 21 .52 RPM
SRP017611_liver 0 .00 RPM 2 .27 RPM
SRP030211_testis 19 .88 RPM 3 .71 RPM

ChIP-Seq - click to see more details

Bos taurus was not studied using ChIP-Seq data.

EST - click to see more details

No EST(s) were mapped for retro_btau_73 retrocopy.

TSS - click to see more details

Bos taurus was not studied using FANTOM5 data.

Lab - click to see more details

retro_btau_73 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_btau_73 has 1 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Equus caballus retro_ecab_971
Parental genes homology:
Parental genes homology involve 15 parental genes, and 23 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000122881 retrocopy
retro_amel_1129,
Bos taurus ENSBTAG00000016093 3 retrocopies
retro_btau_1574, retro_btau_73 , retro_btau_810,
Bos taurus ENSBTAG000000476541 retrocopy
retro_btau_1771,
Canis familiaris ENSCAFG000000157981 retrocopy
retro_cfam_933,
Felis catus ENSFCAG000000038202 retrocopies
retro_fcat_1547, retro_fcat_256,
Homo sapiens ENSG000001020071 retrocopy
retro_hsap_3411,
Loxodonta africana ENSLAFG000000044831 retrocopy
retro_lafr_427,
Macaca mulatta ENSMMUG000000230221 retrocopy
retro_mmul_2124,
Mustela putorius furoENSMPUG000000138173 retrocopies
retro_mputfur_107, retro_mputfur_462, retro_mputfur_969,
Mus musculus ENSMUSG000000311461 retrocopy
retro_mmus_94,
Nomascus leucogenys ENSNLEG000000013171 retrocopy
retro_nleu_2887,
Otolemur garnettii ENSOGAG000000038653 retrocopies
retro_ogar_2568, retro_ogar_2865, retro_ogar_473,
Pan troglodytes ENSPTRG000000218851 retrocopy
retro_ptro_2316,
Rattus norvegicus ENSRNOG000000394961 retrocopy
retro_rnor_2686,
Tursiops truncatus ENSTTRG000000169682 retrocopies
retro_ttru_1586, retro_ttru_767,


Copyright © RetrogeneDB 2014-2017