RetrogeneDB ID:

retro_chof_1289

Retrocopy
location
Organism:Sloth (Choloepus hoffmanni)
Coordinates:scaffold_25177:12328..13624(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSCHOG00000012256
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:ENO1
Ensembl ID:ENSCHOG00000003483
Aliases:None
Description:enolase 1, (alpha) [Source:HGNC Symbol;Acc:3350]


Retrocopy-Parental alignment summary:






>retro_chof_1289
ATGTTCATTCTCAAGATCTTGGCTACAGAGATCTTCGACTCTCATGGAAATCCCACTGTTGAAGTTGATCTCTTCACCCA
AAAAGGGCTCTTCAGAGCTGCTGTGCCCAGTGGTGCCTCAACTGGTATCTATGAGGCCCTTGAGCTCTGGGACAATGACA
AGACAGGCTACATGAGGAAAGGTGTCTCAAAGGCTGTTTAGCACATCAATAAAACTATTGTACCTGCCCTGGTTAGCAAG
AAACTGAACGTCATGGAGCAGGAGAATATTGACAACTGATGATCAAGATGGATGGAACTGAAAATAAATCTAAGTTTGTT
GTGAATGTCATTCTGGGTGTGTCCCTTGCTGTCTGCAAGGCTGGAGCCATGGAGAAGGGGGCCCCCTGTACTGTCACATT
GCTGACCTGGCTGGCAATTTGGGAGTCATCCTGCCAGTTCCCGCTTTCAACGTGATCAATGGCGGCTCTCACACAGGCAA
CAAGTTGGACATGCAGGAATGCATGATCCTCCCTGTCAGCACAGCCAAGTTCAGAGAGGCCATGAGCATCAGAGCAGAGG
TTTACCACAACCTGAAGAATGTCATCAAGATGAAGTACAGGAAATATGCCACCGACGTGGGGGATAAAGGCAGATTTGCC
CCCAACATCCTGGAGAACAAAGAAGCCCTGGAGCTGATTAAAAGTGCAGTTGGCAAATGTTACAGAGACAAGGTTGTAAT
TGGCATGGATGTCGTGCCTCTGAGTTCTTCAGGGATGGAAAGTATGACCTGGACTTCAAGTCTCCTGATGACCCCAGCAG
GTACATCTCACCTGACAAACTGGCAGACCTGTACAAGTCCTTCATCAAGGATTACCCAGTGGTGTCCATCAAAGACCCCT
TTGACCAGGATGACTGGGAAGCTTGGAATAGTTTCATGGCTAGTGCAGGGATCCATGTGGTGGGGGATGATCTCATGGTG
ACCAACCAGAAGCTAATTGCCAAGGCCGTGAGCGAGAAGTCAGGCAACTGCCTCCTGCTCAAAGTGAACCATATCAGCTC
TGTGACCGAGTCCCTTCAGGCGTACAAGCCGGCCCAGTCCAGCGGCTGGGGTATCATGGTGTCTTATCACTCTGGAGAGA
CCGAAGACACCTTCTTCACCAACCCGGTGGTGGGGCTCTGCACCGGGCAGATCAAGATAGGTGCACCTTGCTGCTCTGAG
CACTTGGCCAAGTACAAACAGCTCCTCAGAATTAAAGAGAAGCTGGGCAGCAAGGCCAAGTTTGCCAGCAGGCAGTTCTG
AAACCCCCTAGCCAGG

ORF - retro_chof_1289 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 81.69 %
Parental protein coverage: 100. %
Number of stop codons detected: 2
Number of frameshifts detected 3


Retrocopy - Parental Gene Alignment:

ParentalMSILKIFAREIFDSRGNPTVEVDLFTQKGLFRAAVPSGASAGIYEALELRDNDKTRYMGKGVSKAVEHIN
M.ILKI.A.EIFDS.GNPTVEVDLFTQKGLFRAAVPSGAS.GIYEALEL.DNDKT.YM.KGVSKAV.HIN
RetrocopyMFILKILATEIFDSHGNPTVEVDLFTQKGLFRAAVPSGASTGIYEALELWDNDKTGYMRKGVSKAV*HIN
ParentalKTIAPALVSKKLNVVEQEKID-KLMIEMDGTENK-KFGANAILGVSLAVCKAGAVEKGVP-LYRHIADLA
KTI.PALVSKKLNV.EQE.ID..LMI.MDGTENK.KF..N.ILGVSLAVCKAGA.EKG.P.LY.HIADLA
RetrocopyKTIVPALVSKKLNVMEQENID<QLMIKMDGTENKSKFVVNVILGVSLAVCKAGAMEKGAP<LYCHIADLA
ParentalGNSEVILPVPAFNVINGGSHAGNKLAMQEFMILPVGAANFREAMRIGAEVYHNLKNVIKEKYGKDATNVG
GN..VILPVPAFNVINGGSH.GNKL.MQE.MILPV..A.FREAM.I.AEVYHNLKNVIK.KY.K.AT.VG
RetrocopyGNLGVILPVPAFNVINGGSHTGNKLDMQECMILPVSTAKFREAMSIRAEVYHNLKNVIKMKYRKYATDVG
ParentalDEGGFAPNILENKEALELIKNAVGKAGYSDKVVIGMDVA-ASEFFKNGKYDLDFKSPDDPSRYISPDKLA
D.G.FAPNILENKEALELIK.AVGK..Y.DKVVIGMDV..ASEFF..GKYDLDFKSPDDPSRYISPDKLA
RetrocopyDKGRFAPNILENKEALELIKSAVGKC-YRDKVVIGMDVV<ASEFFRDGKYDLDFKSPDDPSRYISPDKLA
ParentalDLYKSFIRDYPVVSIEDPFDQDDWEAWKNFTTSAGIQVVGDDLTVTNPKRIAKAASEKSCNCLLLKVNQI
DLYKSFI.DYPVVSI.DPFDQDDWEAW..F..SAGI.VVGDDL.VTN.K.IAKA.SEKS.NCLLLKVN.I
RetrocopyDLYKSFIKDYPVVSIKDPFDQDDWEAWNSFMASAGIHVVGDDLMVTNQKLIAKAVSEKSGNCLLLKVNHI
ParentalGSVTESLQACKLAQSDGWGVMVSHRSGETEDTFIADLVVGLCTGQIKTGAPCRSERLAKYNQLLRIEEEL
.SVTESLQA.K.AQS.GWG.MVS..SGETEDTF....VVGLCTGQIK.GAPC.SE.LAKY.QLLRI.E.L
RetrocopySSVTESLQAYKPAQSSGWGIMVSYHSGETEDTFFTNPVVGLCTGQIKIGAPCCSEHLAKYKQLLRIKEKL
ParentalGSKAKFAGRQFRNPLAK
GSKAKFA.RQF.NPLA.
RetrocopyGSKAKFASRQF*NPLAR

Legend:
*Stop codon
>Forward frameshift by one nucleotide
<Reverse frameshift by one nucleotide






RNA-Seq - click to see more details

Choloepus hoffmanni was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Choloepus hoffmanni was not studied using ChIP-Seq data.

EST - click to see more details

Choloepus hoffmanni was not studied using EST data.

TSS - click to see more details

Choloepus hoffmanni was not studied using FANTOM5 data.

Lab - click to see more details

retro_chof_1289 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 17 parental genes, and 33 retrocopies.

Species Parental gene accession Retrocopies number
Choloepus hoffmanni ENSCHOG00000003483 2 retrocopies
retro_chof_1289 , retro_chof_1811,
Callithrix jacchus ENSCJAG000000003594 retrocopies
retro_cjac_1963, retro_cjac_2238, retro_cjac_3891, retro_cjac_438,
Erinaceus europaeus ENSEEUG000000086022 retrocopies
retro_eeur_23, retro_eeur_243,
Homo sapiens ENSG000000748001 retrocopy
retro_hsap_325,
Macropus eugenii ENSMEUG0000000594211 retrocopies
retro_meug_1445, retro_meug_1521, retro_meug_353, retro_meug_472, retro_meug_494, retro_meug_652, retro_meug_664, retro_meug_765, retro_meug_794, retro_meug_874, retro_meug_888,
Macropus eugenii ENSMEUG000000078401 retrocopy
retro_meug_96,
Monodelphis domestica ENSMODG000000095211 retrocopy
retro_mdom_1794,
Mustela putorius furoENSMPUG000000063822 retrocopies
retro_mputfur_1162, retro_mputfur_547,
Mus musculus ENSMUSG000000635241 retrocopy
retro_mmus_109,
Oryctolagus cuniculus ENSOCUG000000100861 retrocopy
retro_ocun_933,
Otolemur garnettii ENSOGAG000000040011 retrocopy
retro_ogar_1059,
Ochotona princeps ENSOPRG000000094921 retrocopy
retro_opri_969,
Pan troglodytes ENSPTRG000000001091 retrocopy
retro_ptro_261,
Pteropus vampyrus ENSPVAG000000050301 retrocopy
retro_pvam_317,
Rattus norvegicus ENSRNOG000000178951 retrocopy
retro_rnor_112,
Sarcophilus harrisii ENSSHAG000000055221 retrocopy
retro_shar_304,
Tarsius syrichta ENSTSYG000000025091 retrocopy
retro_tsyr_2011,




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