RetrogeneDB ID:

retro_chof_1819

Retrocopy
location
Organism:Sloth (Choloepus hoffmanni)
Coordinates:scaffold_392464:167..1092(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:MAP3K7
Ensembl ID:ENSCHOG00000001962
Aliases:None
Description:mitogen-activated protein kinase kinase kinase 7 [Source:HGNC Symbol;Acc:6859]


Retrocopy-Parental alignment summary:






>retro_chof_1819
CAATATCCTTGTCTTTATAAAAAATGAAGGACAGAGCAACTCTGCCACCAGTACAGGCTCCTACATAGACATCACTTCTA
CAAATACCAGTAATAAAAGTGACACTAATATGGAGCAAGTTCCTGCCACAAATGACACTATTAAACGCTTAAAATCAAAA
TTGTTGAAAAATCAGGCAAAGCAACAGAATGAATCTGGACGTTTGAGCTTGGGTACCTCCCGTGGGAGCAGCATGGAGAG
CTTGCCCCCAACCTCTGAGGGCAAGAGGATGAGTGCTGACATGTCTGAAATAGAAGCAAGGATACCTGCAACCACAGCCT
ATTCCAAGCCTAAAAGGGGCCACCGTAAAACCGCTTCATTTGGCAACATTCTGGATGTCCCTGAGATCGTCATATCAGGC
AACGGACAACCAAGACGGAGGTCCATCCAAGACTTGACTGTTACTGGAACAGAACCTGGTCAGGTGAGCAGTAGGTCATC
TAGTCCTAGCATCAGAATGATCACTACCTCAGGACCAACCTCAGAAAAGCCAACTCGAAGTCATCCATGGACCCCTGATG
ATTCCACAGATACCAATGGATCAGATAACTCTATCCCAATGGCTTATCTCACACTGGATCACCAATTACAGCCTCTAGCA
CCATGTCCAAACTCCAAAGAATCTATGGCAGTGTTTGAACAGCATTGTAAGATGGCACAAGAATATATGAAAGTTCAAAC
AGAAATTGCATTATTATTGCAGAGAAAGCAAGAACTAGTTGCAGAACTGGACCAGGATGAAAAGGACCAGCAAAATACAT
CTCGTCTGGTACAGGAACATAAAAAGCTTTTAGACGAAAACAAAAGCCTTTCTACTTATTACCAGCAATGCAAAAAACAA
CTAGAAGTCATCAGAAGTCAGCAACAAAAACGACAAGGCACTTCA

ORF - retro_chof_1819 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 96.76 %
Parental protein coverage: 50.74 %
Number of stop codons detected: 0
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalQYPCQYS-DEGQSNSATSTGSFIDITSTNTSNKSDTNMEQVPATNDTIKRLESKLLKNQAKQQNESGRLS
QYPC.Y...EGQSNSATSTGS.IDITSTNTSNKSDTNMEQVPATNDTIKRL.SKLLKNQAKQQNESGRLS
RetrocopyQYPCLYK>NEGQSNSATSTGSYIDITSTNTSNKSDTNMEQVPATNDTIKRLKSKLLKNQAKQQNESGRLS
ParentalLGTSRGSSMESLPPTSEGKRMSADMSEIEARIAATXXYSKPKRGHRKTASFGNILDVPEIVISGNGQPRR
LGTSRGSSMESLPPTSEGKRMSADMSEIEARI.AT..YSKPKRGHRKTASFGNILDVPEIVISGNGQPRR
RetrocopyLGTSRGSSMESLPPTSEGKRMSADMSEIEARIPATTAYSKPKRGHRKTASFGNILDVPEIVISGNGQPRR
ParentalRSIQDLTVTGTEPGQVSSRSSSPSIRMITTSGPTS-KPTRSHPWTPDDSTDTNGSDNSIPMAYLTLDHQL
RSIQDLTVTGTEPGQVSSRSSSPSIRMITTSGPTS.KPTRSHPWTPDDSTDTNGSDNSIPMAYLTLDHQL
RetrocopyRSIQDLTVTGTEPGQVSSRSSSPSIRMITTSGPTSEKPTRSHPWTPDDSTDTNGSDNSIPMAYLTLDHQL
ParentalQPLAPCPNSKESMAVFEQHCKMAQEYMKVQTEIALLLQRKQELVAELDQDEKDQQNTSRLVQEHKKLLDE
QPLAPCPNSKESMAVFEQHCKMAQEYMKVQTEIALLLQRKQELVAELDQDEKDQQNTSRLVQEHKKLLDE
RetrocopyQPLAPCPNSKESMAVFEQHCKMAQEYMKVQTEIALLLQRKQELVAELDQDEKDQQNTSRLVQEHKKLLDE
ParentalNKSLSTYYQQCKKQLEVIRSQQQKRQGTS
NKSLSTYYQQCKKQLEVIRSQQQKRQGTS
RetrocopyNKSLSTYYQQCKKQLEVIRSQQQKRQGTS

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_1819 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 ENSCHOG00000001962 1 retrocopy
retro_chof_1819 ,
Myotis lucifugus ENSMLUG000000033441 retrocopy
Mus musculus ENSMUSG000000282841 retrocopy



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