RetrogeneDB ID:

retro_chof_1813

Retrocopy
location
Organism:Sloth (Choloepus hoffmanni)
Coordinates:scaffold_391721:234..751(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:PRR11
Ensembl ID:ENSCHOG00000012284
Aliases:None
Description:proline rich 11 [Source:HGNC Symbol;Acc:25619]


Retrocopy-Parental alignment summary:






>retro_chof_1813
CCTCCACATCCTCCTCTACCTCCTTCTGCACCACCAATAGCACCTTTACTGCTCAGAAAAGCAGAGTGCAATAAAGCACT
TCAGGCTGAGCCTTTAAAAAAAGACAGACCCATGCAAATACAGTTAAAGATCTCCTGTCTGTGAAATTTAAAAAGACCCA
GAGTTTTGATGAAAAGAGGAAGCTTGTACCATCACTGTAGGCACCGAATCCTGTAGTTACCATCTCTGATCTGCAACGTG
TTACCTTGAAACATAACTCCAAAGTGTTATCAACTCATGTTACAAATGTCTTAATTACCCCTGATAAAAGCCAGATAGAT
CTGCAGAGACTATTGAGAAAAGTCAATATAAAGAGGACCCAGGTGGAACCCCTCTTACCGATAAAGAAAATATGGAAACA
GGAGCTGGACCAACCCCAATAATGACCCAAGCCTTGAGGAGAAAGTTTCAGGTGGCTCACCCAAGAAGTCCACCTCAAAC
TCTGCCACTTTCTACAGGCAGCTTTGATGAACAAAAC

ORF - retro_chof_1813 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 82.86 %
Parental protein coverage: 66.28 %
Number of stop codons detected: 1
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalPPPPPLPPPAPPIAPLLLRKADRTKALQAEPLKKDGPMQI-TVKDLLTVKLKKTQSFDEKRKLVPSPKAP
PP.PPLPP.APPIAPLLLRKA...KALQAEPLKKD.PMQI.TVKDLL.VK.KKTQSFDEKRKLVPS..AP
RetrocopyPPHPPLPPSAPPIAPLLLRKAECNKALQAEPLKKDRPMQI<TVKDLLSVKFKKTQSFDEKRKLVPSL*AP
ParentalKPLVTVSDLQRVTLKPNSKVLSTRVTNVLITPGKSQIDLRKLLRKVNVERS-PGGTPLTNKENMETGTGL
.P.VT.SDLQRVTLK.NSKVLST.VTNVLITP.KSQIDL..LLRKVN..R..PGGTPLT.KENMETG.G.
RetrocopyNPVVTISDLQRVTLKHNSKVLSTHVTNVLITPDKSQIDLQRLLRKVNIKRT<PGGTPLTDKENMETGAGP
ParentalTPIMTQALRRKFQLAHPRSPTQALPLSTSSFDEQN
TPIMTQALRRKFQ.AHPRSP.Q.LPLST.SFDEQN
RetrocopyTPIMTQALRRKFQVAHPRSPPQTLPLSTGSFDEQN

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_1813 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 3 parental genes, and 4 retrocopies.

Species Parental gene accession Retrocopies number
Choloepus hoffmanni ENSCHOG00000012284 2 retrocopies
retro_chof_1813 , retro_chof_294,
Mustela putorius furoENSMPUG000000152401 retrocopy
Otolemur garnettii ENSOGAG000000058391 retrocopy



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