RetrogeneDB ID:

retro_chof_2246

Retrocopy
location
Organism:Sloth (Choloepus hoffmanni)
Coordinates:scaffold_60495:4241..4757(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RPL15
Ensembl ID:ENSCHOG00000001114
Aliases:None
Description:ribosomal protein L15 [Source:HGNC Symbol;Acc:10306]


Retrocopy-Parental alignment summary:






>retro_chof_2246
GGTGCTTATAAATACATATAGGTGTTATGGAGGAAGAAGCAGTCCGATATGATGTGCTTTCTTCTGAGGGTCCTTTGCTG
GCAATACCACCAGCTCTCTGCACTCCACAGGGCCCCACATCCCACCCGGCCTGATAGAGCACACAGACTGGGATACAAGG
CCAAGCAAGGTTATGTCATCTACGGGATTCAAGTGCACTGTGGTGGCTGCAAACACCTGGTTTCTAAGGGTACAACCTAT
GGTAAGTCTGTCCATCATGGTGTTAATCAGCTGAAATTTGCTCGAAGCCTTCAGTCTGTTGCTGAGGAATGAGCTGGATG
CCACTGCCAGGCACTGAGAGTCCTGAATTCTTACTGGGTTGGTGTAGATTCCACATACAAATTCTTTGAAGTTATCCTCA
TTGATCCATTCCATAAAGCTACCAGAAGAAATCCTGACACCCAGTGGATCACCAGGCCCATCCACTAGCACAGGGAGATG
CATGGGCTGACTTCTGCAGGCCACAAGAGCCATGGC

ORF - retro_chof_2246 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 82.56 %
Parental protein coverage: 99.42 %
Number of stop codons detected: 3
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalGAYKYIQELWRKKQSDVMRFLLRVRCWQYRQLSALHRAPRPTRPDKARRLGYKAKQGYVIYRIRVRRGGR
GAYKYI..LWRKKQSD.M.FLLRV.CWQY.QLSALHRAP.PTRPD.A.RLGYKAKQGYVIY.I.V..GG.
RetrocopyGAYKYI*VLWRKKQSDMMCFLLRVLCWQYHQLSALHRAPHPTRPDRAHRLGYKAKQGYVIYGIQVHCGGC
ParentalKRPVPKGATYGKPVHHGVNQLKFARSLQSVAEERAGRHCGALRVLNSYWVGEDSTYKFFEVILIDPFHKA
K..V.KG.TYGK.VHHGVNQLKFARSLQSVAEE.AG.HC.ALRVLNSYWVG.DSTYKFFEVILIDPFHKA
RetrocopyKHLVSKGTTYGKSVHHGVNQLKFARSLQSVAEE*AGCHCQALRVLNSYWVGVDSTYKFFEVILIDPFHKA
ParentalIRRNPDTQWITKPVHKHREMRGLTSAGRKSRG
.RRNPDTQWIT.P.H.HREM.GLTSAG.KS.G
RetrocopyTRRNPDTQWITRPIH*HREMHGLTSAGHKSHG

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_2246 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 13 retrocopies.

Species Parental gene accession Retrocopies number
Choloepus hoffmanni ENSCHOG00000001114 6 retrocopies
Equus caballus ENSECAG000000101571 retrocopy
Procavia capensis ENSPCAG000000119951 retrocopy
Tursiops truncatus ENSTTRG000000072445 retrocopies



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