RetrogeneDB ID:

retro_chof_157

Retrocopy
location
Organism:Sloth (Choloepus hoffmanni)
Coordinates:GeneScaffold_355:44964..47280(-)
Located in intron of:ENSCHOG00000010072
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:EXOSC10
Ensembl ID:ENSCHOG00000012713
Aliases:None
Description:exosome component 10 [Source:HGNC Symbol;Acc:9138]


Retrocopy-Parental alignment summary:






>retro_chof_157
ATGGCGCCTCCCAGTCCCAGAGAACCTAAACCCCCGTCGGCGACAAGTGTGGCCGAGTCCGACGGGGAGATGGTGCTGCC
GGGCTTCCCGGACGCAGACAGCTTCGTGAAGTTTGCTCTTGGGTCAGTGGTGGCAGTTACCAAGGCATCTGGGGGCCTGC
CACAGTTTGGCGATGAGTATGATTTTTACCGAAGTTTTCCTGGCTTCCAAGCATTTTGTGAAACACAGGGAGACAGGTTG
CTTCATTGCATGAGCAGAGTAATGCAGTACCATGGGTGCCGTAGCAGCATTAAGGATCGAAGCAAAGTGACTGAGTTGGA
GGACAAATTTGATCTCCTAGTTGATGCTAATGACGCTATCCTGGAAAGAGTGGGTATTTTACTGGACGAAGCATCAGGAG
TAAATAAGAATCAACAGCCTGTCCTCCCTGCAGTACTGCAGGTCCCCAAAACGATAGTGTCCAGCTGGAACCGAAAGGCA
GGAGAATATGGCAGAAAAGCAAAATCTGAAACTTTCCGGCTGCTTCATGCAAAAAACATCATCCGACCTCAGCTCAAGTT
TCGAGAGAAGATTGACAATTCCAACACACCATTTCTTCCTAAAATCTTCATCAAGCCCAATGCCCAGAAACCCCTACCTC
AGGCTCTCTCTAAAGAAAAGCGGGAACGCCCATGGGATCGGCCTGAGGACTTGGATGTCCCACCTGCCTTGGCAGATTTC
ATCCATCAGCAGAGAACCCAGCAGGTTGAGCAGGACATGTTTGCACATCCTTATCAATATGAACTAGATCACTTTATTCC
ACCAGAATCGGTTCTTCAGAAGCCACAACCCCAGTTGTATAGACCTGTAGAAGAAACACCCTGTCATTTTGTATCCTCCC
TGGATGAACTTGTGGAACTCAATGAAAAGCTATTGAATTGTAAAGAATTTGCTGTAGACTTGGAGCATCACTCTTATCGG
AGCTTCCTGGGACTGACCTGCCTGATGCAAATTTCCACCCGAACAGAAGACTTCATTGTTGACACCCTGGAGCTTCGAAG
TGACATGTACATTCTCAATGAGAGCCTCACAGACCCAGCTATCGTTAAGGTCTTCCATGGTGCTGACTCAGACATAGAAT
GGCTACAGAAAGACTTTGGGTTGTACGTAGTAAACATGTTTGATACCCATCAGGCAGCGCGTCTTCTTAACCTGGGCAGA
CACTCACTCGACCATCTGCTGAAACTCTACTGCAGTGTGGAGTCAAACAAGCAATATCAGCTGGCGGATTGGCGGATACG
TCCACTGCCTGAGGAAATGCTCAACTATGCCCGAGATGACACTCATTACCTGCTTTACATTTATGATAAAATGAGGCTGG
AACTGTGGGAACGAGGCAATGAACAGCCAATTCAACTGCAGGTGGTTTGGCAGCGGAGCAGGGATATCTGCCTTAAGAAA
TTCATCAAACCTGTCTTCACGGATGAGTCCTACCTGGTACTATATAGAAAGCAAAAGAAACATCTTAACACACAGCAGTT
GACAGCCTTTCAGCTGCTGTTTGCCTGGAGAGATAAAACTGCCCGTAAGGAAGATGAAAGTTACGGATATGTCCTGCCAA
ATCATATGATGTTAAAGATAGCTGAGGAACTGCCTAAGGAACCTCAGGGCATCATAGCTTGCTGTAACCCAGTACCACCT
CTTGTACGGCAGCAGATCAATGAAATGCATCTTTTAATCCAGCAAGCTCGAGAGATGCCCCTGCTCAAGTCTGAAGTTGC
AGCTGGAGGAAAGAAGAGTGGCCCACTGCCCAATCCTGAGAGATTGGAGAATGTTCTCTTTGGACCCCATGACTGCTCCC
ACGCTCCTCCAGACGGCTTTGCTCTCACCCCAGCCAATGGACCTGTCCCAGTTCAGAAACAGGCAAGCCTCTTCTGTGAC
CGAAAAGAGGAGCCCTCAGTGGATAACATATGCCTTATCGCAACGGCTGTCATCACGTTATTCAGTGAACCGAGTGCTGA
AGAAAATGTAAAGGGTCCATTAACAGTTGCCCAGAAAAAGGCCCAGAGCATAATGGAGTCCTTTGAAAATCCATTTAGGA
TGTATCTGCCTTCACTAGAGCACCGTGCCCACATCTCTCAGGCAGCAAAGTTTGATCCATCATCAAAAATCTATGAAATC
AGCAACCGTTGGAAGCTGGCAAACCAGGTACAGGTACCAAAAGAATCTAACACCGCCAAGAAGGCGGCGGCTGAGCAAAC
AGCTGCCCAGGAAGAAGCCAAGGAAGAGCACAAAGCACCGGTGGAACAGTCCATCTCTGTCCGACAGCAGGCAGTG

ORF - retro_chof_157 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 99.48 %
Parental protein coverage: 88.23 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMAPPSPREPKPPSATSVAESDGEMVLPGFPDADSFVKFALGSVVAVTKASGGLPQFGDEYDFYRSFPGFQ
MAPPSPREPKPPSATSVAESDGEMVLPGFPDADSFVKFALGSVVAVTKASGGLPQFGDEYDFYRSFPGFQ
RetrocopyMAPPSPREPKPPSATSVAESDGEMVLPGFPDADSFVKFALGSVVAVTKASGGLPQFGDEYDFYRSFPGFQ
ParentalAFCETQGDRLLHCMSRVMQYHGCRSSIKDRSKVTELEDKFDLLVDANDAILERVGILLDEASGVNKNQQP
AFCETQGDRLLHCMSRVMQYHGCRSSIKDRSKVTELEDKFDLLVDANDAILERVGILLDEASGVNKNQQP
RetrocopyAFCETQGDRLLHCMSRVMQYHGCRSSIKDRSKVTELEDKFDLLVDANDAILERVGILLDEASGVNKNQQP
ParentalVLPAGLQVPKTIVSSWNRKAGEYGRKAKSETFRLLHAKNIIRPQLKFREKIDNSNTPFLPKIFIKPNAQK
VLPA.LQVPKTIVSSWNRKAGEYGRKAKSETFRLLHAKNIIRPQLKFREKIDNSNTPFLPKIFIKPNAQK
RetrocopyVLPAVLQVPKTIVSSWNRKAGEYGRKAKSETFRLLHAKNIIRPQLKFREKIDNSNTPFLPKIFIKPNAQK
ParentalPLPQALSKEKRERPWDRPEDLDVPPALADFIHQQRTQQIEQDMFAHPYQYELDHFIPPESVLQKPQPQLY
PLPQALSKEKRERPWDRPEDLDVPPALADFIHQQRTQQ.EQDMFAHPYQYELDHFIPPESVLQKPQPQLY
RetrocopyPLPQALSKEKRERPWDRPEDLDVPPALADFIHQQRTQQVEQDMFAHPYQYELDHFIPPESVLQKPQPQLY
ParentalRPVEETPCHFVSSLDELVELNEKLLNCKEFAVDLEHHSYRSFLGLTCLMQISTRTEDFIVDTLELRSDMY
RPVEETPCHFVSSLDELVELNEKLLNCKEFAVDLEHHSYRSFLGLTCLMQISTRTEDFIVDTLELRSDMY
RetrocopyRPVEETPCHFVSSLDELVELNEKLLNCKEFAVDLEHHSYRSFLGLTCLMQISTRTEDFIVDTLELRSDMY
ParentalILNESLTDPAIVKVFHGADSDIEWLQKDFGLYVVNMFDTHQAARLLNLGRHSLDHLLKLYCSVESNKQYQ
ILNESLTDPAIVKVFHGADSDIEWLQKDFGLYVVNMFDTHQAARLLNLGRHSLDHLLKLYCSVESNKQYQ
RetrocopyILNESLTDPAIVKVFHGADSDIEWLQKDFGLYVVNMFDTHQAARLLNLGRHSLDHLLKLYCSVESNKQYQ
ParentalLADWRIRPLPEEMLNYARDDTHYLLYIYDKMRLELWERGNEQPIQLQVVWQRSRDICLKKFIKPVFTDES
LADWRIRPLPEEMLNYARDDTHYLLYIYDKMRLELWERGNEQPIQLQVVWQRSRDICLKKFIKPVFTDES
RetrocopyLADWRIRPLPEEMLNYARDDTHYLLYIYDKMRLELWERGNEQPIQLQVVWQRSRDICLKKFIKPVFTDES
ParentalYLELYRKQKKHLNTQQLTAFQLLFAWRDKTARKEDESYGYVLPNHMMLKIAEELPKEPQGIIACCNPVPP
YL.LYRKQKKHLNTQQLTAFQLLFAWRDKTARKEDESYGYVLPNHMMLKIAEELPKEPQGIIACCNPVPP
RetrocopyYLVLYRKQKKHLNTQQLTAFQLLFAWRDKTARKEDESYGYVLPNHMMLKIAEELPKEPQGIIACCNPVPP
ParentalLVRQQINEMHLLIQQAREMPLLKSEVAAGGKKSGPLPNPERLENVLFGPHDCSHAPPDGFALTPANGPVP
LVRQQINEMHLLIQQAREMPLLKSEVAAGGKKSGPLPNPERLENVLFGPHDCSHAPPDGFALTPANGPVP
RetrocopyLVRQQINEMHLLIQQAREMPLLKSEVAAGGKKSGPLPNPERLENVLFGPHDCSHAPPDGFALTPANGPVP
ParentalVQKQASLFCDRKEEPSVDNICLIATAVITLFSEPSAEENVKGPLTVAQKKAQSIMESFENPFRMYLPSLE
VQKQASLFCDRKEEPSVDNICLIATAVITLFSEPSAEENVKGPLTVAQKKAQSIMESFENPFRMYLPSLE
RetrocopyVQKQASLFCDRKEEPSVDNICLIATAVITLFSEPSAEENVKGPLTVAQKKAQSIMESFENPFRMYLPSLE
ParentalHRAHISQAAKFDPSSKIYEISNRWKLANQVQVPKESKTAKKAAAEQTAAQEEAKEEHKAPVEQSISVRQQ
HRAHISQAAKFDPSSKIYEISNRWKLANQVQVPKES.TAKKAAAEQTAAQEEAKEEHKAPVEQSISVRQQ
RetrocopyHRAHISQAAKFDPSSKIYEISNRWKLANQVQVPKESNTAKKAAAEQTAAQEEAKEEHKAPVEQSISVRQQ
ParentalAV
AV
RetrocopyAV

Legend:
*Stop codon
>Forward frameshift by one nucleotide
<Reverse frameshift by one nucleotide






RNA-Seq - click to see more details

Choloepus hoffmanni was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Choloepus hoffmanni was not studied using ChIP-Seq data.

EST - click to see more details

Choloepus hoffmanni was not studied using EST data.

TSS - click to see more details

Choloepus hoffmanni was not studied using FANTOM5 data.

Lab - click to see more details

retro_chof_157 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 1 parental gene, and 1 retrocopy.

Species Parental gene accession Retrocopies number
Choloepus hoffmanni ENSCHOG00000012713 1 retrocopy
retro_chof_157 ,




Copyright © RetrogeneDB 2014-2017