RetrogeneDB ID:

retro_chof_2029

Retrocopy
location
Organism:Sloth (Choloepus hoffmanni)
Coordinates:scaffold_460041:27..336(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:PTP4A2
Ensembl ID:ENSCHOG00000010834
Aliases:None
Description:protein tyrosine phosphatase type IVA, member 2 [Source:HGNC Symbol;Acc:9635]


Retrocopy-Parental alignment summary:






>retro_chof_2029
TGGACATTTGATGATGGAGCTCCACCTCCCTATTAGATAGTGGATGATTGGCTACACCTATTAAAAACCAAATTCTATGA
AGAGCCAGGTTGCTGTGTTGCCATGCATTATGTTGCAGGATTGGGAAGGGCACCTGTGTTGTTTGCACTTGCTTTGACTG
AATGTGGAATGAAGTATGAAGATGCAGTTCAGTCTATAAGACAAAAAAGAAAGGAAACATTCAATTCCAAACAGCTGCTT
TACCTGGAGAAATACCGACCCAAGATGCAATTATGCTTTAGAGATATCAGTGGGCATTACTATGTTCAG

ORF - retro_chof_2029 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 81.55 %
Parental protein coverage: 61.68 %
Number of stop codons detected: 1
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalWPFDDGAPPPNQIVDDWLNLLKTKFREEPGCCVAVHCVAGLGRAPVLVALALIECGMKYEDAVQFIRQKR
W.FDDGAPPP..IVDDWL.LLKTKF.EEPGCCVA.H.VAGLGRAPVL.ALAL.ECGMKYEDAVQ.IRQKR
RetrocopyWTFDDGAPPPY*IVDDWLHLLKTKFYEEPGCCVAMHYVAGLGRAPVLFALALTECGMKYEDAVQSIRQKR
ParentalRGAFNSKQLLYLEKYRPKMRLRFRDTNGHCCVQ
...FNSKQLLYLEKYRPKM.L.FRD..GH..VQ
RetrocopyKETFNSKQLLYLEKYRPKMQLCFRDISGHYYVQ

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_2029 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 6 parental genes, and 13 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000178061 retrocopy
Choloepus hoffmanni ENSCHOG00000010834 1 retrocopy
retro_chof_2029 ,
Macropus eugenii ENSMEUG000000020371 retrocopy
Microcebus murinus ENSMICG000000014245 retrocopies
Macaca mulatta ENSMMUG000000129301 retrocopy
Pan troglodytes ENSPTRG000000004674 retrocopies



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