RetrogeneDB ID:

retro_chof_1709

Retrocopy
location
Organism:Sloth (Choloepus hoffmanni)
Coordinates:scaffold_365003:136..736(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:AURKA
Ensembl ID:ENSCHOG00000005976
Aliases:None
Description:aurora kinase A [Source:HGNC Symbol;Acc:11393]


Retrocopy-Parental alignment summary:






>retro_chof_1709
CATCCTAATATTCTCAAACTGGATAGTTATTTCAATGATCTCACCAGAGTTTAACTAATTCTAGAATATGTACCCCTTTG
AGCAGTCTATAGAGAACTTCAGACACCTTCCAAGTTTGTTGAACAGAGAACTACTTATATCCCAGAATTGGCAGATGCAC
TGTTTTACCGTCATTCAAAGAAAGTTACTCATAGAGACAGCAAGCCAGAGAACCTGCTCCTCAGGTCAGTTGGAGAGCTT
AATACTGCAGACTTTGGGTGGTTGGTACAGGCTCCATCCTCCAGGACAGCCACTCTCTGTGGAACCCTTGACTACTTGCC
TCCTGAGTTGACTGAAGGCGAAATGCATGATGAGAAGATGGATCTCTGGAGACTTGGAGTTCTTTGCTATGAATTTTTAG
TTGGGAAACCACCTTTTGAGGCAAATACATACCAAGAGACTTACAACAGGATATCAAGGGTTGAATTCACATTCCCTGAC
TTTGCTACAGAGGGAGCCAGGGACCTCATTTCAAGACTGTTGAAACATAATTCAAGCCAAAGGTCAACTCTGAAACAAGT
ACTTGAGCACCCCTGGATCACAGCAAATTCATCAAAGCCA

ORF - retro_chof_1709 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 82.59 %
Parental protein coverage: 93.46 %
Number of stop codons detected: 2
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalHPNILRLYGYFHDATRVYLILEYAPLGAVYRELQKLSKFDEQRTATYITELADALSYCHSKKVIHRDIKP
HPNIL.L..YF.D.TRV.LILEY.PL.AVYRELQ..SKF.EQRT.TYI.ELADAL.Y.HSKKV.HRD.KP
RetrocopyHPNILKLDSYFNDLTRV*LILEYVPL*AVYRELQTPSKFVEQRT-TYIPELADALFYRHSKKVTHRDSKP
ParentalENLLLGSAGELKIADFGWSVHAPSSRRTTLCGTLDYLPPEMIEGRMHDEKVDLWSLGVLCYEFLVGKPPF
ENLLL.S.GEL..ADFGW.V.APSSR..TLCGTLDYLPPE..EG.MHDEK.DLW.LGVLCYEFLVGKPPF
RetrocopyENLLLRSVGELNTADFGWLVQAPSSRTATLCGTLDYLPPELTEGEMHDEKMDLWRLGVLCYEFLVGKPPF
ParentalEANTYQETYNRISRVEFT-PDFVTEGARDLISRLLKHNPSQRPTLKEVLEHPWITANSSKP
EANTYQETYNRISRVEFT.PDF.TEGARDLISRLLKHN.SQR.TLK.VLEHPWITANSSKP
RetrocopyEANTYQETYNRISRVEFTFPDFATEGARDLISRLLKHNSSQRSTLKQVLEHPWITANSSKP

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






Choloepus hoffmanni was not studied using RNA-Seq expression data.
Choloepus hoffmanni was not studied using ChIP-Seq data.
Choloepus hoffmanni was not studied using EST data.
Choloepus hoffmanni was not studied using FANTOM5 data.
retro_chof_1709 was not experimentally validated.

Retrocopy orthology:
Choloepus hoffmanni does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.

Parental genes homology:
Parental genes homology involve 18 parental genes, and 32 retrocopies.

Species Parental gene accession Retrocopies number
Canis familiaris ENSCAFG000000293313 retrocopies
Choloepus hoffmanni ENSCHOG00000005976 8 retrocopies
Cavia porcellus ENSCPOG000000066331 retrocopy
Felis catus ENSFCAG000000244931 retrocopy
Homo sapiens ENSG000000875861 retrocopy
Gorilla gorilla ENSGGOG000000071971 retrocopy
Myotis lucifugus ENSMLUG000000079251 retrocopy
Macaca mulatta ENSMMUG000000000701 retrocopy
Mus musculus ENSMUSG000000274961 retrocopy
Nomascus leucogenys ENSNLEG000000070291 retrocopy
Otolemur garnettii ENSOGAG000000044413 retrocopies
Pongo abelii ENSPPYG000000111481 retrocopy
Pan troglodytes ENSPTRG000000136461 retrocopy
Rattus norvegicus ENSRNOG000000044792 retrocopies
Sus scrofa ENSSSCG000000074931 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000119582 retrocopies
Tupaia belangeri ENSTBEG000000132842 retrocopies
Tarsius syrichta ENSTSYG000000092211 retrocopy



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