RetrogeneDB ID:

retro_chof_1837

Retrocopy
location
Organism:Sloth (Choloepus hoffmanni)
Coordinates:scaffold_399570:416..1065(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:PANK3
Ensembl ID:ENSCHOG00000011633
Aliases:None
Description:pantothenate kinase 3 [Source:HGNC Symbol;Acc:19365]


Retrocopy-Parental alignment summary:






>retro_chof_1837
ATTGGAAACCTCCACCTGCACAAACTGGATGAACTTGACTGCCTTGTAAAGGGCTTGCTGTATATAGATTCTGTCAGTTT
CAATGGCCAAGCAGAGTGCTATTATTTTGCTAATGCCTCAGAACCTGAGCGATGCCAAAAGATGCCTTTTAACCTGGATG
ACCCCTATCCACTCCTGGTAGTGAACATTGGTTCAGGAGTCAGTATTTTAGCAGTCCATTCCAAAGACAACTATAAACGA
GTGACCGGGACAAGTCTTGGTGGAGGTACCTTTCTGGGTTTATGGCAGCTTGTTGACTGGCTGTGAAAGTTTTGAAGAGG
CTCTTGAAATGGCATCCAAAGGTGATAGCACCCAAGCTGACAAGCTGGTCCGTGATATTTATGGAGGAGATTATGAAAGA
TTTGGTCTGCCAGGTTGGGCTGTAGCATCTAGTTTCGGTAATATGATTTATAAGGAGAAGCGAGAATCTGTTAGTAAAGA
AGATCTGGCAAGAGCTACTTTAGTTACTATTACCAATAACATTGGTTCTGTGGCACGGATGTGTGCTGTTAATGAGAAAA
TAAACAGAGTTGTCTTTGTTGGAAATTTTTTACGTGTCAATACCCTCTCAATGAAACTTTTGGCATATGCACTGGATTAT
TGGTCAAAA

ORF - retro_chof_1837 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 99.08 %
Parental protein coverage: 58.38 %
Number of stop codons detected: 0
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalIGNLHLHKLDELDCLVKGLLYIDSVSFNGQAECYYFANASEPERCQKMPFNLDDPYPLLVVNIGSGVSIL
IGNLHLHKLDELDCLVKGLLYIDSVSFNGQAECYYFANASEPERCQKMPFNLDDPYPLLVVNIGSGVSIL
RetrocopyIGNLHLHKLDELDCLVKGLLYIDSVSFNGQAECYYFANASEPERCQKMPFNLDDPYPLLVVNIGSGVSIL
ParentalAVHSKDNYKRVTGTSLGGGTFLGLC-SLLTGCESFEEALEMASKGDSTQADKLVRDIYGGDYERFGLPGW
AVHSKDNYKRVTGTSLGGGTFLGL..SLLTGCESFEEALEMASKGDSTQADKLVRDIYGGDYERFGLPGW
RetrocopyAVHSKDNYKRVTGTSLGGGTFLGLW>SLLTGCESFEEALEMASKGDSTQADKLVRDIYGGDYERFGLPGW
ParentalAVASSFGNMIYKEKRESVSKEDLARATLVTITNNIGSVARMCAVNEKINRVVFVGNFLRVNTLSMKLLAY
AVASSFGNMIYKEKRESVSKEDLARATLVTITNNIGSVARMCAVNEKINRVVFVGNFLRVNTLSMKLLAY
RetrocopyAVASSFGNMIYKEKRESVSKEDLARATLVTITNNIGSVARMCAVNEKINRVVFVGNFLRVNTLSMKLLAY
ParentalALDYWSK
ALDYWSK
RetrocopyALDYWSK

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_1837 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 8 parental genes, and 17 retrocopies.

Species Parental gene accession Retrocopies number
Choloepus hoffmanni ENSCHOG00000011633 4 retrocopies
Callithrix jacchus ENSCJAG000000155501 retrocopy
Homo sapiens ENSG000001201371 retrocopy
Gorilla gorilla ENSGGOG000000049471 retrocopy
Nomascus leucogenys ENSNLEG000000048965 retrocopies
Pongo abelii ENSPPYG000000160241 retrocopy
Pan troglodytes ENSPTRG000000175091 retrocopy
Tursiops truncatus ENSTTRG000000161573 retrocopies



Copyright © RetrogeneDB 2014-2017