RetrogeneDB ID:

retro_chof_506

Retrocopy
location
Organism:Sloth (Choloepus hoffmanni)
Coordinates:scaffold_115662:4306..4866(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSCHOG00000004467
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_chof_506
AACTTGGCTCAGGAACATCAGAATTTAGAGGTCAAGAGACAGAGAAGAATCGAAAGAATAAAAAGGAAACTGTCTCAACT
TCAAGAACTTATTTTATAGCAAATTGCCTTCAAGAATTTGGTGCAGAGAAACAGTCAAGCAAAGCAATAAGTCAACTGGC
CACCTCCCTCCAACTGCATCATCATCCACTTACTATTCATCACTGTGAGCAGTAGCAAAAGACAGTGATGGAATGCAGGA
CTTGTAGTGACAAATTTGAGCAGCTGTTTAATTTTGACAGCATATTTGAAATCCATGGTGAAATAGAAGCATTATTACGA
ATAAGAATGACTTGTGGATCAGAATCAGGAAGCTATTCAGCCAAACACCCTAAAATGACAAGAAATTTGGTCCCTAAAAC
TCTGGAACCTTATGTGATGGAAATGTCTCAGAGATCAATCAGCCATGTATTTGTCATGTCATCAGGTTCAACTTCAAATG
ATGTGAGGCTTTCTGCCCATGACTGGACCATTGGTGCAGGTGGGGTGTTGTTGGCTCTGAGTTGCAGTGGTCAGTGGAAC

ORF - retro_chof_506 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 60.64 %
Parental protein coverage: 53.18 %
Number of stop codons detected: 2
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalNSAQECQNLEVERQRRLERIKQKQSQLQELILQQIAFKNLVQRNRQAEQQANRPPPSNS-VIHLPFIIVN
N.AQE.QNLEV.RQRR.ERIK.K.SQLQELIL.QIAFKNLVQRN.QA.Q..N.PPPSN...IHL.FI.V.
RetrocopyNLAQEHQNLEVKRQRRIERIKRKLSQLQELIL*QIAFKNLVQRNSQAKQ*VNWPPPSNCIIIHLLFITVS
ParentalTSK-KTVIDCSISNDKFEYLFNFDNTFEIHDDIEVLKRMGMACGLESGSCSA--DLMARSLVPKALEPYV
.SK.KTV..C....DKFE.LFNFD..FEIH..IE.L.R..M.CG.ESGS.SA....M.R.LVPK.LEPYV
RetrocopySSK<KTVMECRTCSDKFEQLFNFDSIFEIHGEIEALLRIRMTCGSESGSYSAKHPKMTRNLVPKTLEPYV
ParentalTXXXXXXXXXXXXTSSGSTSNGTRLSASDLTNGADGTLATSSSGSQYS
..............SSGSTSN..RLSA.D.T.GA.G.L...S...Q..
RetrocopyMEMSQRSISHVFVMSSGSTSNDVRLSAHDWTIGAGGVLLALSCSGQWN

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_506 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 11 parental genes, and 28 retrocopies.

Species Parental gene accession Retrocopies number
Choloepus hoffmanni ENSCHOG00000004467 8 retrocopies
Callithrix jacchus ENSCJAG000000069502 retrocopies
Homo sapiens ENSG000001981764 retrocopies
Gorilla gorilla ENSGGOG000000049082 retrocopies
Loxodonta africana ENSLAFG000000079271 retrocopy
Myotis lucifugus ENSMLUG000000121651 retrocopy
Macaca mulatta ENSMMUG000000074231 retrocopy
Mus musculus ENSMUSG000000384822 retrocopies
Nomascus leucogenys ENSNLEG000000008493 retrocopies
Otolemur garnettii ENSOGAG000000035321 retrocopy
Pongo abelii ENSPPYG000000258893 retrocopies



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