RetrogeneDB ID:

retro_chof_2115

Retrocopy
location
Organism:Sloth (Choloepus hoffmanni)
Coordinates:scaffold_50687:8260..8995(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:YWHAQ
Ensembl ID:ENSCHOG00000004661
Aliases:None
Description:tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, theta polypeptide [Source:HGNC Symbol;Acc:12854]


Retrocopy-Parental alignment summary:






>retro_chof_2115
ATGGAGAAGACGGAGCTGATCCAGAAGGCGAAGCTGGCCGAGCAGGCCGAGCGCTACGACGACATGGCCACCTGCATGAA
GGCCGTGACGGAGCAGGGCGCCGAGCTGTCCAACGAGGAGCGCAACCTGCTCTCTGTGGCCTACAAGAATGTGGTCGGGG
GCCGCAGGTCCGCCTGGAGGGTCATCTCGAGCATCGAGCAGAAGACCGACACCTCCGACAAGAAGTTGCAGCTGATTAAG
GACTATAGGGAGAAAGTGGAGTCGGAGCTGAGATCCATCTGCACTACGGTCTTGGAATTGTTGGATAAATATTTAATAGC
CAATGCAACTAATCCAGAGAGTAAGGTCTTCTATCTGAAAATGAAGGGAGATTACTTCCGGTACCTTGCTGAAGTGGCCT
GTGGTGATGATCGAAAACAAACGATAGATAATTCCCAAGGAGCCTACCAAGAGGCATTTGATATAAGCAAGAAAGAGATG
CAACCCACACATCCAATCCGCCTGGGGCTGGCTCTTAACTTTTCTGTATTTTACTATGAGATCCTTAATAACCCAGAGCT
TGCCTGTACACTGGCTAAAACGGCTTTTGATGAGGCCATTGCAGAACTTGATACACTGAATGAAGACTCATACAAAGACA
GCACCCTCATCATGCAGTTGCTTAGAGACAACCTAACATTATGGACATCAGACAGTGCAGGGGAAGAATGCGACGCAGCA
GAAGGGGCAGAAAAC

ORF - retro_chof_2115 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 91.43 %
Parental protein coverage: 100. %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalVEKTELIQKAKLAEQAEWYDDMATCMKPM-EQGAELFNEEHNLLSLAYNNVVRGNRSTWRVILSMEQKTN
.EKTELIQKAKLAEQAE.YDDMATCMK...EQGAEL.NEE.NLLS.AY.NVV.G.RS.WRVI.S.EQKT.
RetrocopyMEKTELIQKAKLAEQAERYDDMATCMKAVTEQGAELSNEERNLLSVAYKNVVGGRRSAWRVISSIEQKTD
ParentalTSDKKVQLIKDYKEN-ELELRSICTMVLELLDKYLIANATNPESKVFYLKMKGDYFRYLAEVACGDDRKQ
TSDKK.QLIKDY.E..E.ELRSICT.VLELLDKYLIANATNPESKVFYLKMKGDYFRYLAEVACGDDRKQ
RetrocopyTSDKKLQLIKDYREKVESELRSICTTVLELLDKYLIANATNPESKVFYLKMKGDYFRYLAEVACGDDRKQ
ParentalTIDNSQGAYQEAFDISKKEMQPTHPIRLGLALNFSVFYYEILNNPELACTLAKTAFDEAIAELDTLNEDS
TIDNSQGAYQEAFDISKKEMQPTHPIRLGLALNFSVFYYEILNNPELACTLAKTAFDEAIAELDTLNEDS
RetrocopyTIDNSQGAYQEAFDISKKEMQPTHPIRLGLALNFSVFYYEILNNPELACTLAKTAFDEAIAELDTLNEDS
ParentalYKDSTLIMQLLRDNLTLWTSDSAGEECDAAEGAEN
YKDSTLIMQLLRDNLTLWTSDSAGEECDAAEGAEN
RetrocopyYKDSTLIMQLLRDNLTLWTSDSAGEECDAAEGAEN

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_2115 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 50 retrocopies.

Species Parental gene accession Retrocopies number
Choloepus hoffmanni ENSCHOG000000027989 retrocopies
Choloepus hoffmanni ENSCHOG00000004661 13 retrocopies
Choloepus hoffmanni ENSCHOG0000000578215 retrocopies
Choloepus hoffmanni ENSCHOG000000108612 retrocopies
Callithrix jacchus ENSCJAG000000063942 retrocopies
Monodelphis domestica ENSMODG000000147401 retrocopy
Nomascus leucogenys ENSNLEG000000135343 retrocopies
Rattus norvegicus ENSRNOG000000081045 retrocopies



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