RetrogeneDB ID:

retro_chof_2273

Retrocopy
location
Organism:Sloth (Choloepus hoffmanni)
Coordinates:scaffold_62518:4396..4686(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSCHOG00000004876
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_chof_2273
CTGCTGTATCATGAGTTGGAGGGGCAGGAGCTTCTGTGGCAGCAGTAGCCAGAGGACCAAGGTGGCCATTGCACAGGATA
TTTGCATCCTGGAGAGAAGATCTTCTCATCCATGGGTGACCTGAGCTACATGGGAGGTGGTGGCTGCATTCTCCTGGGAG
GGCTGAACTGTCTGGGGGGTGGCTGATGCAAGGGGCCAGCACACCTGTGGCAGCCATCCCCTGGCCATCTATTTGTCCTC
TGTCCATGTGTTTCAGCACTTTGTCTTCATCCATATTCTCAAAGACAACA

ORF - retro_chof_2273 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 54.9 %
Parental protein coverage: 62.73 %
Number of stop codons detected: 1
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalLLREELELERLRWRRRPGDRERRRTGDLRLGERDLLLIRGGDLRHMGGGGSILLGGLKRRGGG-RGQGAS
LL..ELE...L.W...P.D.....TG.L..GE........GDL..MGGGG.ILLGGL...GGG...QGAS
RetrocopyLLYHELEGQELLWQQ*PEDQGGHCTGYLHPGEK--IFSSMGDLSYMGGGGCILLGGLNCLGGG<LMQGAS
ParentalTAVAVISWPSICPPPSMCFSAFSASSGFSNST
T.VA.I.WPSIC.P.SMCFS..S.SS.FS..T
RetrocopyTPVAAIPWPSIC-PLSMCFSTLS-SSIFSKTT

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_2273 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 4 parental genes, and 6 retrocopies.

Species Parental gene accession Retrocopies number
Choloepus hoffmanni ENSCHOG00000004876 3 retrocopies
retro_chof_1586, retro_chof_1986, retro_chof_2273 ,
Homo sapiens ENSG000001679701 retrocopy
Tursiops truncatus ENSTTRG000000082191 retrocopy
Vicugna pacos ENSVPAG000000099751 retrocopy



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