RetrogeneDB ID:

retro_ogar_1086

Retrocopy
location
Organism:Bushbaby (Otolemur garnettii)
Coordinates:GL873535.1:4680042..4680450(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:H3F3A
Ensembl ID:ENSOGAG00000024312
Aliases:None
Description:H3 histone, family 3A [Source:HGNC Symbol;Acc:4764]


Retrocopy-Parental alignment summary:






>retro_ogar_1086
ATGGCTGGTACAAAGCAGCCTGCCCGCAAATCCACCGGTGGTAAAGCACCCAGGAAGCAACTGGCTACAAAAGCCGCTCG
CAAGAGTGTGCCCTCTACTGGAGGGGTGAAGAAACCTCATCGCTCCAGGCCTGGTACTGTGGCACTCCGTGAAATAAGAC
GTTATCAAAAGTCCACTGAACTTCTGATTTGCAAACTTCCTTTCCAGCATCTGGTGTGAGAAATTGCTCAGGACTTTAAG
ATAGATCTGCGCTTCCAGAGTGCAGCTATTGGTGTTTTGCGGGAAGCAAGTGAGGCCTATCTGGTTGGCCTTTTTGAAGA
CATCAACCTGTGTGCTATCCATGCCACACGTGTAACAATTATGCCAAAAGACATCTAGCTAGCACGCTGCATATGTGGAG
ACCCTGCT

ORF - retro_ogar_1086 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 87.5 %
Parental protein coverage: 100. %
Number of stop codons detected: 2
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMARTKQTARKSTGGKAPRKQLATKAARKSAPSTGGVKKPHRYRPGTVALREIRRYQKSTELLIRKLPFQR
MA.TKQ.ARKSTGGKAPRKQLATKAARKS.PSTGGVKKPHR.RPGTVALREIRRYQKSTELLI.KLPFQ.
RetrocopyMAGTKQPARKSTGGKAPRKQLATKAARKSVPSTGGVKKPHRSRPGTVALREIRRYQKSTELLICKLPFQH
ParentalLVREIAQDFKTDLRFQSAAIGALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARRIRGERA
LV.EIAQDFK.DLRFQSAAIG.L.EASEAYLVGLFED.NLCAIHA.RVTIMPKDI.LAR.I.G..A
RetrocopyLV*EIAQDFKIDLRFQSAAIGVLREASEAYLVGLFEDINLCAIHATRVTIMPKDI*LARCICGDPA

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






Otolemur garnettii was not studied using RNA-Seq expression data.
Otolemur garnettii was not studied using ChIP-Seq data.
Otolemur garnettii was not studied using EST data.
Otolemur garnettii was not studied using FANTOM5 data.
retro_ogar_1086 was not experimentally validated.

Retrocopy orthology:
Otolemur garnettii 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 27 parental genes, and 174 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000145887 retrocopies
Bos taurus ENSBTAG000000245613 retrocopies
Canis familiaris ENSCAFG000000049162 retrocopies
Canis familiaris ENSCAFG000000161194 retrocopies
Dipodomys ordii ENSDORG000000081329 retrocopies
Erinaceus europaeus ENSEEUG000000137961 retrocopy
Felis catus ENSFCAG000000036174 retrocopies
Felis catus ENSFCAG000000304245 retrocopies
Homo sapiens ENSG000001630415 retrocopies
Gorilla gorilla ENSGGOG0000002252611 retrocopies
Gadus morhua ENSGMOG000000143061 retrocopy
Macropus eugenii ENSMEUG000000040905 retrocopies
Macaca mulatta ENSMMUG000000314839 retrocopies
Monodelphis domestica ENSMODG000000059833 retrocopies
Mustela putorius furoENSMPUG000000138113 retrocopies
Mus musculus ENSMUSG0000001655918 retrocopies
Nomascus leucogenys ENSNLEG000000015772 retrocopies
Otolemur garnettii ENSOGAG00000024312 11 retrocopies
Otolemur garnettii ENSOGAG0000002593314 retrocopies
Oreochromis niloticus ENSONIG000000158057 retrocopies
Pongo abelii ENSPPYG0000000016814 retrocopies
Pongo abelii ENSPPYG000000086361 retrocopy
Pan troglodytes ENSPTRG0000000204520 retrocopies
Pteropus vampyrus ENSPVAG000000084592 retrocopies
Rattus norvegicus ENSRNOG000000032204 retrocopies
Sus scrofa ENSSSCG000000239712 retrocopies
Tursiops truncatus ENSTTRG000000158897 retrocopies



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