RetrogeneDB ID:

retro_chof_1127

Retrocopy
location
Organism:Sloth (Choloepus hoffmanni)
Coordinates:scaffold_20620:95..954(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:ADIPOR1
Ensembl ID:ENSCHOG00000006450
Aliases:None
Description:adiponectin receptor 1 [Source:HGNC Symbol;Acc:24040]


Retrocopy-Parental alignment summary:






>retro_chof_1127
GTCTGGGAGGGAATTGGAGGGTCATCCTATATGAGGTGCTCCCGACTGGCTGAGGAACAATGACTCCCTGCTACATGGCT
ACAGACCACTCATGCCCTCCCTTCAGGCTTGCTTCAAGAGCATCTTCCACATCCGTACAGAAAATGGCAACATCTGGACC
CATCTGCTTGGTTTTGTGCTGTTTCTCTTTTTGGGAATCTTGACCATACTCAGACTAAATATATATGTCATGGTCCCTCT
ATAGGAGAAGGTCGTTTTGGGGGATATTCTTTGGGGCACAGTGCTCTGCCTCAGTTTCTCCTGGCTCATTCACACCATCT
ATTGTCATTCAGAGAAACTGTCTCAGACTTTGTCAAAACCGGACTATTTGGGGATCGTGCTACTGATTATGGGGAGCTTT
GTCCCCTGCCTCTATTACTCCTTCTACTGCTCCCCACAGCCATGGCTCATCTCCCTCTCCATCGTCTGTGTCCTGGGGAT
TTCTGCCGTCCTTGTGGCACAGTGGCATTGGACACTCCTAAGCGCCGGCAGACAAGAGCAGAGTGTTTCTGGGACTTGGC
TTGAGCAGTGTTGTGCCCGCCATGCACTTCATTATCTCCAGGGGCTTTGTCAAGGCCACCTCAGGGGGCCACATGGGCTG
GTTCTTCCTCACGGCTGTGACAAACATCACCAGAGCTGGCCTGTATGCTGCTCAAATTCCTGAGCACTTCTTTCCTGGGA
AGTTTGACATATGGTTCCAGTCTCATCAGATTTTCCATGTCCTGGTGGTGGCAGCCACCTTTGTACACTTCTATGGGGTC
TCCAATCTTCACGAGTTCCCTTATGGCCTAGAAGGGGCTGTACTGATGACTCCCTTCTC

ORF - retro_chof_1127 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 74.74 %
Parental protein coverage: 77.9 %
Number of stop codons detected: 1
Number of frameshifts detected 4


Retrocopy - Parental Gene Alignment:

ParentalVWEG-RWRVIPYDVLP-DWLKDNDYLLHGHRPPMPSFRACFKSIFRIHTETGNIWTHLLGFVLFLFLGIL
VWEG..WRVI.Y.VLP.DWL..ND.LLHG.RP.MPS..ACFKSIF.I.TE.GNIWTHLLGFVLFLFLGIL
RetrocopyVWEG<NWRVILYEVLP<DWLRNNDSLLHGYRPLMPSLQACFKSIFHIRTENGNIWTHLLGFVLFLFLGIL
ParentalTMLRPNMYFMAPLQEKVVFGMFFLGAVLCLSFSWLFHTVYCHSEKVSRTFSKLDYSGIALLIMGSFVPWL
T.LR.N.Y.M.PL.EKVV.G....G.VLCLSFSWL.HT.YCHSEK.S.T.SK.DY.GI.LLIMGSFVP.L
RetrocopyTILRLNIYVMVPL*EKVVLGDILWGTVLCLSFSWLIHTIYCHSEKLSQTLSKPDYLGIVLLIMGSFVPCL
ParentalYYSFYCSPQPRLIYLSIVCVLGISAIIVAQWDRFATPKHRQ-TRAGVFLGLGLSGVVPTMHFTIAEGFVK
YYSFYCSPQP.LI.LSIVCVLGISA..VAQW........RQ..R....LGL..S.VVP.MHF.I..GFVK
RetrocopyYYSFYCSPQPWLISLSIVCVLGISAVLVAQWHWTLLSAGRQ>SRVFLGLGL--SSVVPAMHFIISRGFVK
ParentalATTVGQMGWFFLMAVMYITGAGLYAARIPERFFPGKFDIWFQSHQIFHVLVVAAAFVHFYGVSNLQEFRY
AT..G.MGWFFL.AV..IT.AGLYAA.IPE.FFPGKFDIWFQSHQIFHVLVVAA.FVHFYGVSNL.EF.Y
RetrocopyATSGGHMGWFFLTAVTNITRAGLYAAQIPEHFFPGKFDIWFQSHQIFHVLVVAATFVHFYGVSNLHEFPY
ParentalGLEG-GCTDDSLL
GLEG.GCTDDSLL
RetrocopyGLEG<GCTDDSLL

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_1127 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 21 parental genes, and 42 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000121991 retrocopy
Choloepus hoffmanni ENSCHOG00000006450 8 retrocopies
Choloepus hoffmanni ENSCHOG000000126681 retrocopy
Callithrix jacchus ENSCJAG000000062683 retrocopies
Cavia porcellus ENSCPOG000000004821 retrocopy
Dipodomys ordii ENSDORG000000068761 retrocopy
Felis catus ENSFCAG000000135651 retrocopy
Loxodonta africana ENSLAFG000000035201 retrocopy
Macropus eugenii ENSMEUG000000154391 retrocopy
Microcebus murinus ENSMICG000000079423 retrocopies
Myotis lucifugus ENSMLUG000000161022 retrocopies
Macaca mulatta ENSMMUG000000070461 retrocopy
Mustela putorius furoENSMPUG000000112151 retrocopy
Otolemur garnettii ENSOGAG000000338214 retrocopies
Ochotona princeps ENSOPRG000000045283 retrocopies
Pongo abelii ENSPPYG000000003421 retrocopy
Sorex araneus ENSSARG000000076801 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000154593 retrocopies
Tupaia belangeri ENSTBEG000000151492 retrocopies
Tarsius syrichta ENSTSYG000000014911 retrocopy
Tursiops truncatus ENSTTRG000000063812 retrocopies



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