RetrogeneDB ID:

retro_chof_1052

Retrocopy
location
Organism:Sloth (Choloepus hoffmanni)
Coordinates:scaffold_190504:390..943(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:PPA2
Ensembl ID:ENSCHOG00000008731
Aliases:None
Description:pyrophosphatase (inorganic) 2 [Source:HGNC Symbol;Acc:28883]


Retrocopy-Parental alignment summary:






>retro_chof_1052
GAAAATGGCATTCCTACAAAGACAGCATAAAACAAATATGAGAATTTGCTTCATATGGTTGTTGCAATACCTTGCTGAAC
AAATGCTAAAATGAAGACTGTCACCAAGGAGACACTGAACCCCATTAAACAGGATGTAAAGGATGGCAAGCTACGCTACG
TGCCAAATATCTTCCTTCATAAGGTTCTATGCAGAATTACGGTGCTCTCCAGCAGACTTGGGTAGATCCCCCGGGAAAAG
AGCATAAACTGCTGGGAGATAATGCTCCTATTGATGCTTGTGTTATAGGATCCATTTTTTTTCTCCTGGAGAGGTCATTT
ATTGTCAAGATCCTTGGAATTCCATCGTTATTGATGTGGATGGAACAGACTGGAAGTTAACTGCCATCAATGTGAATGAT
CCTGAAGCCTCAATGTTTCATGATATTGGTGATGTCAAGAAGTACAAACCTGGTTACTTGGAAGCTACATTTAATTGGTT
TAGATTTTACAAGGTGTCAGATGGAAAACCAGTTCACTTTAATGGAAAATTCAAAAACAAGGATTTTTTAATT

ORF - retro_chof_1052 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 61.14 %
Parental protein coverage: 64.85 %
Number of stop codons detected: 2
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalENYIPTKRARSGEHESMFNMIVEVPRWTNAKMEIATEEPLNPIKQDVKNGKLRYVANIFPHK-GYIWNY-
EN.IPTK.A.....E....M.V..P..TNAKM...T.E.LNPIKQDVK.GKLRYV.NIF.HK.G...NY.
RetrocopyENGIPTKTA*N-KYENLLHMVVAIPC*TNAKMKTVTKETLNPIKQDVKDGKLRYVPNIFLHK<GSMQNYG
ParentalALPQTWEDPHRKDKSTDCCGDNDPIDVCEIGSKVLSRGKVIHVKILGILAL-IDQGETDWKLIAINVNDP
AL.QTW.DP..K.......GDN.PID.C.IGS..........VKILGI..L.ID...TDWKL.AINVNDP
RetrocopyALQQTWVDPPGKEHK--LLGDNAPIDACVIGSXXXLLERSFIVKILGIPSL<IDVDGTDWKLTAINVNDP
ParentalEASKFHDIDDVKKYKPGYLEATLNWFRMYKVPEGKPENQLAFNGEFKNKAFAL
EAS.FHDI.DVKKYKPGYLEAT.NWFR.YKV..GKP.....FNG.FKNK.F..
RetrocopyEASMFHDIGDVKKYKPGYLEATFNWFRFYKVSDGKP---VHFNGKFKNKDFLI

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_1052 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 9 parental genes, and 17 retrocopies.

Species Parental gene accession Retrocopies number
Canis familiaris ENSCAFG000000108871 retrocopy
Choloepus hoffmanni ENSCHOG00000008731 3 retrocopies
retro_chof_1052 , retro_chof_430, retro_chof_769,
Echinops telfairi ENSETEG000000148161 retrocopy
Macaca mulatta ENSMMUG000000170041 retrocopy
Monodelphis domestica ENSMODG000000206355 retrocopies
Oryctolagus cuniculus ENSOCUG000000059412 retrocopies
Ochotona princeps ENSOPRG000000070861 retrocopy
Sus scrofa ENSSSCG000000223651 retrocopy
Tursiops truncatus ENSTTRG000000031412 retrocopies



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