RetrogeneDB ID:

retro_chof_116

Retrocopy
location
Organism:Sloth (Choloepus hoffmanni)
Coordinates:GeneScaffold_2464:48148..48618(-)
Located in intron of:ENSCHOG00000003592
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_116
GTATGTCTTGTCTTCAGTTTGCTCTTTTGGTTCTGTGGCTGCTGCGTTTTGGGCTTTGGAATCTACTTCCTGATCCACAA
CAACTTCAGGGTGCTCTTCCATAATTTCCCCTCCCTCACGCTGGGCAATGTGCTCATCATTGTGAGCTCCATTATCATGG
TGGTTGCCTTCCTGGGCTGCATGGGCTCCATCAAAGAGAACAAGTGCCTGTTTATGTCATTCTTTCTTTGCTGCTGATTA
TCCCCCTTGCTGAAGTGACCTTGGCCATCCTGCTGTTTGTGTATGAACAGAAGCTGAGTGATAATGTGGCTGAGGGTCTG
ACCAGAAGCATCCAGCATTACCACTCAGACAACAGCACCAAGGTAGCTTGGGACTCCATCCAGTTGTTTCTGCAATGTTG
CTATATAAATGGCACAAGTGATTGGACCAGTGGCCCACCAGAATCTTGCCCCAAAGATCCACAAGCTAAG

ORF - retro_chof_116 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 87.97 %
Parental protein coverage: 73.02 %
Number of stop codons detected: 0
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalVLFVFNLLFWFCGCCILGFGIYFLIHNNFGVLFHKLPSLTLGNVLIIVGSIIMVVAFLGCMGSIKENKCL
V..VF.LLFWFCGCC.LGFGIYFLIHNNF.VLFH..PSLTLGNVLIIV.SIIMVVAFLGCMGSIKENKCL
RetrocopyVCLVFSLLFWFCGCCVLGFGIYFLIHNNFRVLFHNFPSLTLGNVLIIVSSIIMVVAFLGCMGSIKENKCL
ParentalLMSFFL-LLLIILLAEVTLAILLFVYEQKLSDYVAEGLTSSIQRYHSDNSTKAAWDSIQSFLQCCGINGT
.MSFFL.LLLII.LAEVTLAILLFVYEQKLSD.VAEGLT.SIQ.YHSDNSTK.AWDSIQ.FLQCC.INGT
RetrocopyFMSFFL<LLLIIPLAEVTLAILLFVYEQKLSDNVAEGLTRSIQHYHSDNSTKVAWDSIQLFLQCCYINGT
ParentalSDWTGGPPESCPKDPQVK
SDWT.GPPESCPKDPQ.K
RetrocopySDWTSGPPESCPKDPQAK

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_116 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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