RetrogeneDB ID:

retro_chof_2287

Retrocopy
location
Organism:Sloth (Choloepus hoffmanni)
Coordinates:scaffold_6339:21775..23122(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:ATP6V1B2
Ensembl ID:ENSCHOG00000003668
Aliases:None
Description:ATPase, H+ transporting, lysosomal 56/58kDa, V1 subunit B2 [Source:HGNC Symbol;Acc:854]


Retrocopy-Parental alignment summary:






>retro_chof_2287
ATCAAGTTTCCTAGATATGCTGAGATTGTTCACTTGACATTACCAGATGGCACAAAAAGAAGTGGGCAGGTTCTAGAAGT
TAGTGGTTCCAAAGCAGTGGTTCAGGTATTTGAAGGGACTTCAGGTATAGATGCCAAGAAAACATCTTGTGAGTTTACAG
GGGATATTCTCCGAACACTAGTGTCTGAGGATATGCTTGGTCGGGTATTCAATGGATCTGGAAAACCCATTGACAGAGGC
CCTGTCGTGTTGGCCAAAGATTTCCTTGACATCATGGGCCAGCCAATCAATCCTCAGTGTCGAATCTACCCAGAAGAGAT
GATTCAGACTGGCATTTCAGCCATCGATGGCATGAACAGTATTGCTAGAGGGCAGAAAATTCCTATCTTCTCTGCTGCTG
GTTTACCACACAATGAGATTGCAGCTCAAATCTGTCGCCAGGCAGGTTTGGTAAAGAAATCCAAAGATGTTGTAGACTAC
AGCGAGGAAAATTTTGCAATTGTATTTGCTGCTATGGGTGTAAACATGGAAACTGCCCGATTCTTCAAGTCTGACTTTGA
AGAAAATGGCTCAATGGACAATGTCTGCCTCTTTCTGAACTTGGCTAATGACCCAACCATTGAGCGAATTATCACTCCTC
GTCTGGCTCTAACCACAGCTGAATTTCTGGCCTACCAATGTGAGAAACATGTGTTGGTTATCCTAACAGACATGAGTTCT
TATGCAGAAGCACTTCGAGAGGTTTCAGCAGCCAGGGAAGAAGTTCCTGGTCGATGAGGTTTCCCAGGTTATATGTATAC
AGATTTAGCCACAATATATGAACGCGCTGGTCGAGTGGAAGGTAGAAATGGCTCTATTACTCAAATGCCTATTCTCACCA
TGCCTAACGATGATATTACTCACCCTATCCCTGACTTGACTGGATATATTACAGAGGGTCAAATCTATGTGGACAGACAA
CTGCACAATAGACAGATTTACCCACCTATTAATGTGCTGCCTTCATTATCACAGTTAATGAAGTCTGCTATTGGAGAAGG
CATGACCAGAAAGGATCATGCCGATGTATCTAACCAGCTGTATGCGTGCTATGCAATTGGTAAGGATGTACAAGCCATGA
AAGCCGTAGTTAGAGAAGAAGCCCTTACCTCAGATGATCTTCTTTACTTGGAATTTCTCCAGAAGTTTGAAAGGAACTTT
ATTGCCCAGGGTCCTTATGAAAACCGCACTGTCTATGAGACTTTGGACATTGGCTGGCAACTGCTCCGAATCTTCCCCAA
AGAAATGCTGAAGAGAATCCCTCAGAGCACCCTGAGCGAGTTCTACCCTCGAGATTCTGCAAAGCAT

ORF - retro_chof_2287 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 98. %
Parental protein coverage: 87.84 %
Number of stop codons detected: 1
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalVKFPRYAEIVHLTLPDGTKRSGQVLEVSGSKAVVQVFEGTSGIDAKKTSCEFTGDILRTPVSEDMLGRVF
.KFPRYAEIVHLTLPDGTKRSGQVLEVSGSKAVVQVFEGTSGIDAKKTSCEFTGDILRT.VSEDMLGRVF
RetrocopyIKFPRYAEIVHLTLPDGTKRSGQVLEVSGSKAVVQVFEGTSGIDAKKTSCEFTGDILRTLVSEDMLGRVF
ParentalNGSGKPIDRGPVVLAEDFLDIMGQPINPQCRIYPEEMIQTGISAIDGMNSIARGQKIPIFSAAGLPHNEI
NGSGKPIDRGPVVLA.DFLDIMGQPINPQCRIYPEEMIQTGISAIDGMNSIARGQKIPIFSAAGLPHNEI
RetrocopyNGSGKPIDRGPVVLAKDFLDIMGQPINPQCRIYPEEMIQTGISAIDGMNSIARGQKIPIFSAAGLPHNEI
ParentalA-QICRQAGLVKKSKDVVEYSEENFAIVFADMGVNMETARFFKSDFEENGSMDNVCLFLNLANDPTIERI
A.QICRQAGLVKKSKDVV.YSEENFAIVFA.MGVNMETARFFKSDFEENGSMDNVCLFLNLANDPTIERI
RetrocopyAAQICRQAGLVKKSKDVVDYSEENFAIVFAAMGVNMETARFFKSDFEENGSMDNVCLFLNLANDPTIERI
ParentalITPRLALTTAEFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTDLATIYERAGRVE
ITPRLALTTAEFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGR.GFPGYMYTDLATIYERAGRVE
RetrocopyITPRLALTTAEFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGR*GFPGYMYTDLATIYERAGRVE
ParentalGRNGSITQMPILTMPNDDITHPIPDLTGYITEGQIYVDRQLHNRQIYPPINVLPSLSRLMKSAIGEGMTR
GRNGSITQMPILTMPNDDITHPIPDLTGYITEGQIYVDRQLHNRQIYPPINVLPSLS.LMKSAIGEGMTR
RetrocopyGRNGSITQMPILTMPNDDITHPIPDLTGYITEGQIYVDRQLHNRQIYPPINVLPSLSQLMKSAIGEGMTR
ParentalKDHADVSNQLYACYAIGKDVQAMKAVVGEEALTSDDLLYLEFLQKFERNFIAQGPYENRTVYETLDIGWQ
KDHADVSNQLYACYAIGKDVQAMKAVV.EEALTSDDLLYLEFLQKFERNFIAQGPYENRTVYETLDIGWQ
RetrocopyKDHADVSNQLYACYAIGKDVQAMKAVVREEALTSDDLLYLEFLQKFERNFIAQGPYENRTVYETLDIGWQ
ParentalLLRIFPKEMLKRIPQSTLSEFYPRDSAKH
LLRIFPKEMLKRIPQSTLSEFYPRDSAKH
RetrocopyLLRIFPKEMLKRIPQSTLSEFYPRDSAKH

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_2287 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 8 retrocopies.

Species Parental gene accession Retrocopies number
Choloepus hoffmanni ENSCHOG00000003668 1 retrocopy
retro_chof_2287 ,
Homo sapiens ENSG000001474161 retrocopy
Gorilla gorilla ENSGGOG000000038881 retrocopy
Microcebus murinus ENSMICG000000017911 retrocopy
Nomascus leucogenys ENSNLEG000000007941 retrocopy
Pan troglodytes ENSPTRG000000200401 retrocopy
Tarsius syrichta ENSTSYG000000104771 retrocopy
Tursiops truncatus ENSTTRG000000136501 retrocopy



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