RetrogeneDB ID:

retro_btau_17

Retrocopy
location
Organism:Cow (Bos taurus)
Coordinates:25:28034287..28034644(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSBTAG00000031582
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:TCEB2
Ensembl ID:ENSBTAG00000019543
Aliases:None
Description:elongin B [Source:RefSeq peptide;Acc:NP_001029972]


Retrocopy-Parental alignment summary:






>retro_btau_17
ATGGATGTGTTCCTCATGATCCGGCGCGGCAAGACCACCATCTTCACTGAGGCCAAGGAGTCGAGCACCGTGTTTGAGTT
GAAGCGCGTCATCCAGGGTATCCTCAAGCGTCCACCAGATGAGCAGCGGCTGTATAAAGACAACCAGCTTCTGGATGACA
GCAGGACATTGGGCGAGTGTGGTTTCACCAGCCAAACGGCACTACCTCAGGCCCCAGTGACTGTGGGGCTAGCCTTCAGG
GAAGACGAGGCATTTGAAGACGTGTGCATCGAGCCCTTCTCCAGCCCACCCGAGCTGCCAGATGTAATGAAGCCACGGGA
CTCAGGAAGCAGAGCCAATGGACAAGCTGTGCAGTAA

ORF - retro_btau_17 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 85.59 %
Parental protein coverage: 100. %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMDVFLMIRRHKTTIFTDAKESSTVFELKRIVEGILKRPPDEQRLYKDDQLLDDGKTLGECGFTSQTARPQ
MDVFLMIRR.KTTIFT.AKESSTVFELKR...GILKRPPDEQRLYKD.QLLDD..TLGECGFTSQTA.PQ
RetrocopyMDVFLMIRRGKTTIFTEAKESSTVFELKRVIQGILKRPPDEQRLYKDNQLLDDSRTLGECGFTSQTALPQ
ParentalAPATVGLAFRADEAFEALRIEPFSSPPELPDVMKPQDSGSSANEQAVQ
AP.TVGLAFR.DEAFE...IEPFSSPPELPDVMKP.DSGS.AN.QAVQ
RetrocopyAPVTVGLAFREDEAFEDVCIEPFSSPPELPDVMKPRDSGSRANGQAVQ

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 6 .56 RPM
ERP005899_muscle 0 .00 RPM 65 .04 RPM
SRP017611_brain 0 .00 RPM 20 .92 RPM
SRP017611_kidney 0 .00 RPM 28 .57 RPM
SRP017611_liver 0 .00 RPM 22 .95 RPM
SRP030211_testis 1 .29 RPM 100 .28 RPM
Bos taurus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_btau_17 retrocopy.
Bos taurus was not studied using FANTOM5 data.
retro_btau_17 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_btau_17 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 16 parental genes, and 49 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG00000019543 3 retrocopies
retro_btau_142, retro_btau_17 , retro_btau_29,
Callithrix jacchus ENSCJAG0000001534710 retrocopies
Cavia porcellus ENSCPOG000000210241 retrocopy
Felis catus ENSFCAG000000047112 retrocopies
Homo sapiens ENSG000001033632 retrocopies
Gorilla gorilla ENSGGOG000000153061 retrocopy
Monodelphis domestica ENSMODG000000165364 retrocopies
Mustela putorius furoENSMPUG000000152651 retrocopy
Mus musculus ENSMUSG000000558397 retrocopies
Nomascus leucogenys ENSNLEG000000094712 retrocopies
Oryctolagus cuniculus ENSOCUG000000101162 retrocopies
Pongo abelii ENSPPYG000000070131 retrocopy
Pan troglodytes ENSPTRG000000076631 retrocopy
Rattus norvegicus ENSRNOG000000048146 retrocopies
Sus scrofa ENSSSCG000000080611 retrocopy
Tursiops truncatus ENSTTRG000000154545 retrocopies



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