RetrogeneDB ID:

retro_chof_2556

Retrocopy
location
Organism:Sloth (Choloepus hoffmanni)
Coordinates:scaffold_86175:3510..3825(+)
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:ENSCHOG00000000013
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_chof_2556
ACCACGAGCTCTATGGGCTCGGGTCGTCGTTGTCGTGCCCAAGTCTCCCGCCTTGTCTCTTTCAGCGCGAGCTACCGGCT
CCACAGCAAATTTCTGAGTAATGAAAACTTGAAACTGTTTGGGAACTGCAACAATCCAAATGGCCATGGACACAATTACA
AAGTTGTGGTGACAGTGTATGGAGACACTGATCCTGTTACAGGGATGGTTATGAACCTGACTGGCCTCACATAGTATATG
GAGGAGGCACTTATGAAGCCCCTTGATCACAAGAATCTGAACCCAGATGTGTCATACTTCACTGATGTGGTGACG

ORF - retro_chof_2556 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 69.81 %
Parental protein coverage: 72.6 %
Number of stop codons detected: 1
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalTMSALGLGRCRRAQLSRLVSFSATHRLHSKSLSNEENLKLFGKCNNPNGHGHNYRXXXXXXXXIDPVTGM
T.S..G.GR..RAQ.SRLVSFSA..RLHSK.LSNE.NLKLFG.CNNPNGHGHNY..........DPVTGM
RetrocopyTTSSMGSGRRCRAQVSRLVSFSASYRLHSKFLSNE-NLKLFGNCNNPNGHGHNYKVVVTVYGDTDPVTGM
ParentalVMNLTDLKECMEQAIMKPLDHKNLDLDVSYFPDVVS
VMNLT.L...ME.A.MKPLDHKNL..DVSYF.DVV.
RetrocopyVMNLTGLT*YMEEALMKPLDHKNLNPDVSYFTDVVT

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_2556 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 11 parental genes, and 18 retrocopies.

Species Parental gene accession Retrocopies number
Choloepus hoffmanni ENSCHOG00000000013 2 retrocopies
retro_chof_1925, retro_chof_2556 ,
Callithrix jacchus ENSCJAG000000124372 retrocopies
Dasypus novemcinctus ENSDNOG000000148231 retrocopy
Echinops telfairi ENSETEG000000081452 retrocopies
Homo sapiens ENSG000001507871 retrocopy
Macaca mulatta ENSMMUG000000152551 retrocopy
Nomascus leucogenys ENSNLEG000000072991 retrocopy
Otolemur garnettii ENSOGAG000000171913 retrocopies
Pongo abelii ENSPPYG000000038801 retrocopy
Pan troglodytes ENSPTRG000000042883 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000132771 retrocopy



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