RetrogeneDB ID:

retro_chof_50

Retrocopy
location
Organism:Sloth (Choloepus hoffmanni)
Coordinates:scaffold_166705:1072..1648(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSCHOG00000008282
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSCHOG00000005306
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_chof_50
ATGCAGACAATTAAGTGCGTTGTTGTGAGTGATGGTGCTGTTGGTAAAACATGTCTCCTGATATCCTACACAACAAACAA
ATTTCCATCTGAATATGTACCAACTGTTTTTGACAACTATGCAGTCACAGTTATGATTGTTGGAGAGCCATATACTCTCA
GACTTTTCGATACCGCAGGGCAAGAGGATTATGACAGATTACGACCGCTGAGTTATCCACAAACAGATGTATTTCTAGTC
TGTTTTTCAGTGGTATCTCCATCCTCATTTGAAAATGTGAAAGAAAAGTGGGTACCTGAGATAACTCACCACTGTCCAAA
GACTCCTTTCTTGCTTGTTGGGACCCAAATTGATCTCAGAGATGACCCCTCTACTATTGAGAAACTTGCCAAGAATAAAC
AGAAGCCTATCACTCCGGAGACTGCTGAAAAGCTGGCCCGTGACCTGAAGGCTGTCAAATATGTGGAGTGTTCTGCTCTC
ACACAGAGAGGTCTGAAGAATGTGTTTGATGAGGCTATCCTAGCTGCCCTCGAGCCTCCGGAAACTCAACCCAAAAGGAA
GTGCTGTATATTCTAA

ORF - retro_chof_50 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 98.43 %
Parental protein coverage: 100. %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMQTIKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGQEDYDRLRPL
MQTIKCVVV.DGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMI.GEPYTL.LFDTAGQEDYDRLRPL
RetrocopyMQTIKCVVVSDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIVGEPYTLRLFDTAGQEDYDRLRPL
ParentalSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPITPE
SYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPITPE
RetrocopySYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPITPE
ParentalTAEKLARDLKAVKYVECSALTQRGLKNVFDEAILAALEPPETQPKRKCCIF
TAEKLARDLKAVKYVECSALTQRGLKNVFDEAILAALEPPETQPKRKCCIF
RetrocopyTAEKLARDLKAVKYVECSALTQRGLKNVFDEAILAALEPPETQPKRKCCIF

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_50 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 29 parental genes, and 124 retrocopies.

Species Parental gene accession Retrocopies number
Canis familiaris ENSCAFG000000147075 retrocopies
Choloepus hoffmanni ENSCHOG000000005493 retrocopies
Choloepus hoffmanni ENSCHOG00000005306 10 retrocopies
Callithrix jacchus ENSCJAG000000059126 retrocopies
Cavia porcellus ENSCPOG000000065434 retrocopies
Dipodomys ordii ENSDORG000000103743 retrocopies
Equus caballus ENSECAG000000191801 retrocopy
Echinops telfairi ENSETEG000000044431 retrocopy
Felis catus ENSFCAG000000048534 retrocopies
Homo sapiens ENSG000000708316 retrocopies
Gorilla gorilla ENSGGOG000000244395 retrocopies
Myotis lucifugus ENSMLUG000000133654 retrocopies
Macaca mulatta ENSMMUG000000220098 retrocopies
Monodelphis domestica ENSMODG000000160783 retrocopies
Mustela putorius furoENSMPUG000000159992 retrocopies
Mus musculus ENSMUSG000000066993 retrocopies
Nomascus leucogenys ENSNLEG000000081984 retrocopies
Oryctolagus cuniculus ENSOCUG000000099861 retrocopy
Otolemur garnettii ENSOGAG000000142611 retrocopy
Ochotona princeps ENSOPRG000000053312 retrocopies
Pongo abelii ENSPPYG000000017556 retrocopies
Rattus norvegicus ENSRNOG000000135361 retrocopy
Sorex araneus ENSSARG000000051843 retrocopies
Sus scrofa ENSSSCG000000035201 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000008054 retrocopies
Tupaia belangeri ENSTBEG0000000261417 retrocopies
Tarsius syrichta ENSTSYG0000000067911 retrocopies
Tursiops truncatus ENSTTRG000000057082 retrocopies
Vicugna pacos ENSVPAG000000069193 retrocopies



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