RetrogeneDB ID:

retro_chof_307

Retrocopy
location
Organism:Sloth (Choloepus hoffmanni)
Coordinates:GeneScaffold_6992:44700..45197(+)
Located in intron of:ENSCHOG00000008172
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:CD53
Ensembl ID:ENSCHOG00000010760
Aliases:None
Description:CD53 molecule [Source:HGNC Symbol;Acc:1686]


Retrocopy-Parental alignment summary:






>retro_chof_307
ATGCACAAGAGTAGCTTGAAATTGCTGAAGTATGTCCTATTTGTCTTCAGTTTGCTCTTTTGGTTCTATGGCTGCTGCAT
TTTGGGCTTTGGGATCTACTTCCTGATCCACAACAATTTTGGGATGCTCTTCCATAACCCCTCACTCATGCCAGGCAATA
CACTTGTCATCATGGGCTCCATTAACATGGTGGTTGCCTTCCTGGGCTGCATGGGCTTCATCAAGGACAACAAATGCCTG
CTTATTTAGTCCTTCTCCTGCCACTGATTATCCTCCTTGAAGTGACCTTGGCCATCCTTCTTTTTGTGTATGAAGAGAAG
CTGAGTGATTATGTGGCTGAGGGTCTGACCAGGAGTATCAAGAGCTACTACTCAGACAACAGCACCTAGATGGCGTGAGA
TTCCATCCAGTTCTTTCTGCAACGTTGCAGTGTAAATGGCACAAGTGACTGGATCAGCAGTCTGCCAGAATCTCGCCCCT
CAGTTTCACAGGCTAAA

ORF - retro_chof_307 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 74.56 %
Parental protein coverage: 78.14 %
Number of stop codons detected: 3
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalMGMSTLKLLKYVLFVFNLLFWFCGCCILGFGIYFLIHNNFGVLFHKLPSLTLGNVLIIVGSIIMVVAFLG
M..S.LKLLKYVLFVF.LLFWF.GCCILGFGIYFLIHNNFG.LFH..PSL..GN.L.I.GSI.MVVAFLG
RetrocopyMHKSSLKLLKYVLFVFSLLFWFYGCCILGFGIYFLIHNNFGMLFHN-PSLMPGNTLVIMGSINMVVAFLG
ParentalCMGSIKENKCLLMSFF-LLLLIILLAEVTLAILLFVYEQKLSDYVAEGLTSSIQRYHSDNSTKAAWDSIQ
CMG.IK.NKCLL...F.LL.LIILL.EVTLAILLFVYE.KLSDYVAEGLT.SI..Y.SDNST..A.DSIQ
RetrocopyCMGFIKDNKCLLI*SF<LLPLIILL-EVTLAILLFVYEEKLSDYVAEGLTRSIKSYYSDNST*MA*DSIQ
ParentalSFLQCCGINGTSDWTGGPPESCPKDPQVK
.FLQ.C..NGTSDW....PES.P...Q.K
RetrocopyFFLQRCSVNGTSDWISSLPESRPSVSQAK

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_307 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 8 parental genes, and 11 retrocopies.

Species Parental gene accession Retrocopies number
Choloepus hoffmanni ENSCHOG000000037852 retrocopies
Choloepus hoffmanni ENSCHOG00000010760 2 retrocopies
retro_chof_116, retro_chof_307 ,
Homo sapiens ENSG000001431191 retrocopy
Gorilla gorilla ENSGGOG000000054681 retrocopy
Macaca mulatta ENSMMUG000000008111 retrocopy
Nomascus leucogenys ENSNLEG000000036491 retrocopy
Otolemur garnettii ENSOGAG000000167132 retrocopies
Pan troglodytes ENSPTRG000000010851 retrocopy



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