RetrogeneDB ID:

retro_chof_1222

Retrocopy
location
Organism:Sloth (Choloepus hoffmanni)
Coordinates:scaffold_23023:8268..9023(+)
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_1222
GCTGAAGAAGAGTGAACATGTACAGTGCCCCAGGAAGAAGAGGATGTGGTGTGGGTACTGATAATTCTCCTACAAGCCCA
CCATGCCATGGAGAAGATGGAGGAGTTTATATATAAGATCTTGGAAGGATGTTGGAAGGTCATCCATGTGATGCACTCCC
CAGTTGGCTGAAGTGCAGTGACTACCTGCTACATGGCCATAGACCTCCCAAACCCTCCTTTCCTGCTTCTTTCAAGAGCA
TCTTCTGCATCTATACAAAAACTGGCAGCATTTGGACCCATCTGCTTGTTTCTGTGCTGTTTCCCTTTTTGGGAATCTTG
GCCATACTTAGACCAAACACACACTTCATGAATTCTCTACAGAAGAAGATGGTTTGTGGGATGTTCTTTTTGGGTGCAGT
GCTCTGCCTTAGTTTCTCCTACCTCTTTCACACCATCTATTGTCATTCAGAGAAAGTCTCTTGGACTTTTTTCCAAACTG
GACTCATCAGGGATTTCTCTACAGATTATGGGGACTGTTGTCACCTGCCTCTTTTACCCCTTCTGCTGCTCCCCATAGCC
ATGGCTCATCTACCTCTCTACTGTCTGTGTTCTGGGGATTTCTGCCATCATTATGATGCACTGGGTCCCATTTTCCCCTC
CTAAGCACCTGCAGACAAGGGCAAAATTGTTCCTGGTACTTGGCTTGAGTGGTGGTGTGCCACCATGCACTTTACTACCA
CTGAGGGATTTATTAAAGCCACTAACTGTGGCAGA

ORF - retro_chof_1222 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 70.98 %
Parental protein coverage: 67.92 %
Number of stop codons detected: 2
Number of frameshifts detected 3


Retrocopy - Parental Gene Alignment:

ParentalAEEEQTCPVPQEEEEEVRVLTLPLQAHHAMEKMEEFVYKVWEGRWRVI-PYDVLPDWLKDNDYLLHGHRP
AEEE.TC.VPQEEE..V.VL...LQAHHAMEKMEEF.YK..EG.W.VI.P.D.LP.WLK..DYLLHGHRP
RetrocopyAEEE*TCTVPQEEEDVVWVLIILLQAHHAMEKMEEFIYKILEGCWKVI<PCDALPSWLKCSDYLLHGHRP
ParentalPMPSFRACFKSIFRIHTETGNIWTHLLGFVLFLFLGILTMLRPNMYFMAPLQEKVVFGMFFLGAVLCLSF
P.PSF.A.FKSIF.I.T.TG.IWTHLL..VLF.FLGIL..LRPN..FM..LQ.K.V.GMFFLGAVLCLSF
RetrocopyPKPSFPASFKSIFCIYTKTGSIWTHLLVSVLFPFLGILAILRPNTHFMNSLQKKMVCGMFFLGAVLCLSF
ParentalSWLFHTVYCHSEKVSRT-FSKLDYSGIALLIMGSFVPWLYYSFYCSPQPRLIYLSIVCVLGISAIIVAQW
S.LFHT.YCHSEKVS.T.FSKLD.SGI.L.IMG..V..L.Y.F.CSP.P.LIYLS.VCVLGISAII...W
RetrocopySYLFHTIYCHSEKVSWT>FSKLDSSGISLQIMGTVVTCLFYPFCCSP*PWLIYLSTVCVLGISAIIMMHW
ParentalDRFATPKHRQTRAGVFLGLGLSGVVP-TMHFTIAEGFVKATTVGQ
..F..PKH.QTRA..FL.LGLSG.VP.TMHFT..EGF.KAT..G.
RetrocopyVPFSPPKHLQTRAKLFLVLGLSGGVP<TMHFTTTEGFIKATNCGR

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_1222 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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