RetrogeneDB ID:

retro_chof_948

Retrocopy
location
Organism:Sloth (Choloepus hoffmanni)
Coordinates:scaffold_174046:597..1077(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:MAK16
Ensembl ID:ENSCHOG00000009081
Aliases:None
Description:MAK16 homolog (S. cerevisiae) [Source:HGNC Symbol;Acc:13703]


Retrocopy-Parental alignment summary:






>retro_chof_948
ACCAAGACTCAGAGCTTTTGCAGAAATGAATACAGCCTAACTGGATCATGCAATTGATCATCCTGTCCCCTGGTGAACAA
ATCAGTATGCCACTGTCAAAGAAGAAAAAGGACAGTGTTTCTTGTATATGAAGGTTATAGAACGAGCAGCTTTTCCTAGG
CGTCTCTGGGAACAGGTCTGGCTCAGTAAAAACCACAAGAAAGCACTAGAACAGATAGATGAAAACCTAATTTACTAGCC
ATGTTTTATTTGACATAAATGTAAGCAGATTTTCACCAAGATTGCCCAGTACCTAATTCAAATTCGAAAACTTACGCTAA
AGCAACAGGGGAAACTTGTTCCTTTGAGTAAGAAGGTGGAACAGAGAGAAAAAAGGAGAAAGGAAAAGGCCTCTGCTGCT
CATCAGGATAACGCCACTGAAGAGGAATTACCGAGAGGCTGAAGCCAGATACGTACAGTGACATCTACAGCTTCCCCATT

ORF - retro_chof_948 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 80.37 %
Parental protein coverage: 54.39 %
Number of stop codons detected: 3
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalTKTQSFCRNEYSLTGLCNRSSCPLAN-SQYATIKEEKGQCYLYMKVIERAAFPRRLWERVLLSKNYEKAL
TKTQSFCRNEYSLTG.CN.SSCPL.N..QYAT.KEEKGQC.LYMKVIERAAFPRRLWE.V.LSKN..KAL
RetrocopyTKTQSFCRNEYSLTGSCN*SSCPLVN>NQYATVKEEKGQCFLYMKVIERAAFPRRLWEQVWLSKNHKKAL
ParentalEQIDENLIYWPRFIRHKCKQRFTKITQYLIRIRKLTLKRQRKIVPLSKKVERREKRREEKALIAAQLDNA
EQIDENLIY.P.FI.HKCKQ.FTKI.QYLI.IRKLTLK.Q.K.VPLSKKVE.REKRR.EKA..AA..DNA
RetrocopyEQIDENLIY*PCFI*HKCKQIFTKIAQYLIQIRKLTLKQQGKLVPLSKKVEQREKRRKEKA-SAAHQDNA
ParentalIEKEL-LERLKQDTYSDIYNFPI
.E.EL..ERLK.DTYSDIY.FPI
RetrocopyTEEEL<TERLKPDTYSDIYSFPI

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_948 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 7 parental genes, and 13 retrocopies.

Species Parental gene accession Retrocopies number
Choloepus hoffmanni ENSCHOG00000009081 5 retrocopies
Dasypus novemcinctus ENSDNOG000000084241 retrocopy
Latimeria chalumnae ENSLACG000000187581 retrocopy
Macropus eugenii ENSMEUG000000069451 retrocopy
Myotis lucifugus ENSMLUG000000027581 retrocopy
Oryctolagus cuniculus ENSOCUG000000087353 retrocopies
Sus scrofa ENSSSCG000000158321 retrocopy



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