RetrogeneDB ID:

retro_chof_689

Retrocopy
location
Organism:Sloth (Choloepus hoffmanni)
Coordinates:scaffold_135425:3636..4457(-)
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:ENSCHOG00000003543
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_chof_689
CAGCATTTCAAAACTAGGAAAAGAGATGAAAAAGAGAGGTTTGACCCTACGCAGTTTCAGGGCTGTATTATTCAAGGCTC
AACTGAATCTGGTACTGATTTGGAAGCAGTAGAAAAGTTTCTTGATGCCTCTGGAGCAAAACTTGATTATTGCTGATATG
TAGAAACACTCTTTGACATTCTGGTGGCTGGTGGAATTCTGGCCCCAGGTGGTACACTGGAAGATGGCATGATGCATACA
GATATCTGTGTGTTTGCAGCACAAGAAGACCCAGAGACCATGCAAGCATTTGCTCAGGTTTTTAACAAGTTAATCAGGTG
CTACAAATACCTGGAGAAAAGTTTTGAAGATGAAGTTTAAAAGCTTCTATTGTTCTCAAAAGGTTTTTCAGAGTTGGGAA
AGAAAATGCTGGCTATGTTGACTGGTGTTCTTCTGGCTAATGGGATACTTAATGCATCCATTCTTAATAGCCTTTATAAT
GAGAATTTGGTTAAAGAAAGGGTTTCAGCAGCTTTTGCTGTGAAGCTCTTTTAATCACAGATAAATGAAAAAGATATCAA
TGTGGTAGCTGCAAGTCTTCAGAAAGTCAGCATGGATAACAGACTGATGAAAATTTTTCCTGCCAATAAGCAAAGCGTCA
AACACTACACAAAGTATTTTACTGAGGCAGGCTTGAAATAGCTTTCTGAGTATGTTTGGAGTCATCAAACTATAGGAGCT
CAAAAAGAGCTCCAAAAAGAACTTCAAGAACAGATGTCAGATGGGGATCCATTTAAGGATATCATTTTGTATGTCAAGGA
GGATGTGAGTAAAACAACATC

ORF - retro_chof_689 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 84.36 %
Parental protein coverage: 77.62 %
Number of stop codons detected: 4
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalQRFKTRKRDEKERFDPTQFQDCIIQGLTETGTDLEAVAKFLDASGAKLDYRRYAETLFDILVAGGMLAPG
Q.FKTRKRDEKERFDPTQFQ.CIIQG.TE.GTDLEAV.KFLDASGAKLDY..Y.ETLFDILVAGG.LAPG
RetrocopyQHFKTRKRDEKERFDPTQFQGCIIQGSTESGTDLEAVEKFLDASGAKLDYC*YVETLFDILVAGGILAPG
ParentalGTLADDMMRTDVCVFAAQEDLETMQAFAQVFNKLIRRYKYLEKGFEDEVKKLLLFLKGFSESERNKLAML
GTL.D.MM.TD.CVFAAQED.ETMQAFAQVFNKLIR.YKYLEK.FEDEV.KLLLF.KGFSE.....LAML
RetrocopyGTLEDGMMHTDICVFAAQEDPETMQAFAQVFNKLIRCYKYLEKSFEDEV*KLLLFSKGFSELGKKMLAML
ParentalTGVLLANGTLNASILNSLYNENLVKEGVSAAFAVKLFKSWINEKDINAVAASLRKVSMDNRLMELFPANK
TGVLLANG.LNASILNSLYNENLVKE.VSAAFAVKLF.S.INEKDIN.VAASL.KVSMDNRLM..FPANK
RetrocopyTGVLLANGILNASILNSLYNENLVKERVSAAFAVKLF*SQINEKDINVVAASLQKVSMDNRLMKIFPANK
ParentalQSVEHFTKYFTEAGLKELSEYVRNQQTIGARKELQKELQEQMSRGDPFKDIILYVKEEMKK-NNI
QSV.H.TKYFTEAGLK.LSEYV...QTIGA.KELQKELQEQMS.GDPFKDIILYVKE...K.NNI
RetrocopyQSVKHYTKYFTEAGLK*LSEYVWSHQTIGAQKELQKELQEQMSDGDPFKDIILYVKEDVSK<NNI

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_689 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 15 parental genes, and 27 retrocopies.

Species Parental gene accession Retrocopies number
Canis familiaris ENSCAFG000000118781 retrocopy
Choloepus hoffmanni ENSCHOG00000003543 8 retrocopies
Cavia porcellus ENSCPOG000000104491 retrocopy
Homo sapiens ENSG000000821532 retrocopies
Gorilla gorilla ENSGGOG000000162961 retrocopy
Microcebus murinus ENSMICG000000033551 retrocopy
Myotis lucifugus ENSMLUG000000016532 retrocopies
Monodelphis domestica ENSMODG000000150001 retrocopy
Mustela putorius furoENSMPUG000000123441 retrocopy
Mus musculus ENSMUSG000000512233 retrocopies
Nomascus leucogenys ENSNLEG000000069291 retrocopy
Pan troglodytes ENSPTRG000000127911 retrocopy
Pteropus vampyrus ENSPVAG000000081111 retrocopy
Tarsius syrichta ENSTSYG000000136382 retrocopies
Tursiops truncatus ENSTTRG000000036391 retrocopy



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