RetrogeneDB ID:

retro_chof_2240

Retrocopy
location
Organism:Sloth (Choloepus hoffmanni)
Coordinates:scaffold_60344:3303..4144(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:CDK14
Ensembl ID:ENSCHOG00000012973
Aliases:None
Description:cyclin-dependent kinase 14 [Source:HGNC Symbol;Acc:8883]


Retrocopy-Parental alignment summary:






>retro_chof_2240
TCTCTGTTAAAAGGACTAAAACATGCTAACATAGTGCTGCTTCATGACATCATCCACACAAGGGAGATACTGACACTTGG
GTTTGAATATGTGCACACTGATTTATGTCAGTACATGGACAAGCACGCTGGGGGTGCTGCATCCAGACAATGTGAAGTTG
TTTTGATTTCAGTTGCTATGAGGGCTGCATTACATCTACAAGGGGTTTATTTTGCATAGAGACCTGAAGCCACAGAACCT
TCTGATCAGTGACATGGAGGAGTTAAAGCTGGCAGATTTTGGTCTTGCCAGAGCAAAATCCGTCCCTAGTCACACATACT
CCAAGGAAGTGGTTACCTTGTGGTATAGACCTCCAGATGTTTTCCTGGGCTCAATAGAATAGTCTACCTGCCTTAACATA
ACGGGAGTCGGTTGCATCTTTGTTGAAATGATTCAAGGGGTTGCTGCTTTTCTGGGAATGAAAGACATTCAGGATCAACT
TGAACAAGTGTTTCTGTTCCTTGGAACACCAAGTAACACATGACCTGGAGTTCATTCTTTACCACATTTTAAGCCAGAAT
GCTTTACGCTGTACAGCTCTAAAATCCTTAGACAAGCTTGGAATAAGCTTATCTATGTCAATCATGCAGAAGATCTGGCT
TCCAAGCTCGTACAATGTTCCCCAAAGAACAGACTATCAGCACAGGCACCAATGAGCCATGAGTATTTCAGTGACCTGCC
TCTGCAGCTATGGGAACTGACTGACTTATCTTCTATTTTTACCGTCCCAAATGTATGATTGCAACCAGAAGCTGGAGAAA
GCATGCAGGCCTTTGGGAAAAACAACAGTTATGGCAAAAGT

ORF - retro_chof_2240 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 79.79 %
Parental protein coverage: 59.83 %
Number of stop codons detected: 5
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalSLLKGLKHANIVLLHDIIHTKETLTLVFEYVHTDLCQYMDKHPGG-LHPDNVKLFLFQLLRGLSYIHQRY
SLLKGLKHANIVLLHDIIHT.E.LTL.FEYVHTDLCQYMDKH.GG.LHPDNVKLF.FQLL.GL.YI....
RetrocopySLLKGLKHANIVLLHDIIHTREILTLGFEYVHTDLCQYMDKHAGG>LHPDNVKLF*FQLL*GLHYIYKGF
ParentalILHRDLKPQNLLISDTGELKLADFGLARAKSIPSHTYSNEVVTLWYRPPDVLLGSTEYSTCLDMWGVGCI
ILHRDLKPQNLLISD..ELKLADFGLARAKS.PSHTYS.EVVTLWYRPPDV.LGS.E.STCL...GVGCI
RetrocopyILHRDLKPQNLLISDMEELKLADFGLARAKSVPSHTYSKEVVTLWYRPPDVFLGSIE*STCLNITGVGCI
ParentalFVEMIQGVAAFPGMKDIQDXXXXXXXVLGTPNEDTWPGVHSLPHFKPERFTLYSSKNLRQAWNKLSYVNH
FVEMIQGVAAF.GMKDIQD........LGTP...T.PGVHSLPHFKPE.FTLYSSK.LRQAWNKL.YVNH
RetrocopyFVEMIQGVAAFLGMKDIQDQLEQVFLFLGTPS-NT*PGVHSLPHFKPECFTLYSSKILRQAWNKLIYVNH
ParentalAEELASKLLQCSPKNRLSAQAALSHQYFSDLPPRLWELTDXXXXXXXXNVRWQPEAGESMRA-GKNNSYG
AE.LASKL.QCSPKNRLSAQA..SH.YFSDLP..LWELTD........NV..QPEAGESM.A.GKNNSYG
RetrocopyAEDLASKLVQCSPKNRLSAQAPMSHEYFSDLPLQLWELTDLSSIFTVPNV*LQPEAGESMQAFGKNNSYG
ParentalKS
KS
RetrocopyKS

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_2240 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 3 parental genes, and 3 retrocopies.

Species Parental gene accession Retrocopies number
Choloepus hoffmanni ENSCHOG00000012973 1 retrocopy
retro_chof_2240 ,
Choloepus hoffmanni ENSCHOG000000136791 retrocopy
Callithrix jacchus ENSCJAG000000141751 retrocopy



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