RetrogeneDB ID:

retro_ogar_757

Retrocopy
location
Organism:Bushbaby (Otolemur garnettii)
Coordinates:GL873527.1:11201720..11202068(+)
Located in intron of:ENSOGAG00000016708
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:SSBP1
Ensembl ID:ENSOGAG00000016661
Aliases:None
Description:single-stranded DNA binding protein 1, mitochondrial [Source:HGNC Symbol;Acc:11317]


Retrocopy-Parental alignment summary:






>retro_ogar_757
TTGAACGATCCCTGAATCATGGGACCAGTAGGTCAGGACCCTGCCATGAGACAGGTGGAAGAAAAAAATCCAGTCACAAT
ATTTTCTCTAGCAAAAAATGAGAAGTGGGGATCAGAGGACCATGAAGTATACCAAATGGGTGATACTGGTCAAAAGACAA
CATGGCACAGAGTATCAGTATTCTGGTCAGGCCTCATAGATGTGGCTCTTTGTGAAAAAGGAGTCTCAAAATTATGTGAA
TGGGAAAACAGACCATAGAGAACACTGGATAAAAATAGTGTGAGGTGCTAAGCAACAATGCTCATAGCTGATAATGTTGC
ATTTCCGAATGACTAGGCGAAAAAGGAG

ORF - retro_ogar_757 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 61.67 %
Parental protein coverage: 79.73 %
Number of stop codons detected: 3
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalLNRVQLLGRVGQDPVMRQVEGKNPVTIFSLATNEMWRSGDSEVYQMGDVSQKTTWHRISVFRPGLRDVAY
LN.....G.VGQDP.MRQVE.KNPVTIFSLA.NE.W.S.D.EVYQMGD..QKTTWHR.SVF..GL.DVA.
RetrocopyLNDP*IMGPVGQDPAMRQVEEKNPVTIFSLAKNEKWGSEDHEVYQMGDTGQKTTWHRVSVFWSGLIDVA-
ParentalQYVKKG-SRIYVEGKVDYGEY-TDKNNVRRQATTIIADNIIFLSDQAKEK
....KG.S..YV.GK.D..E...DKN.VR..AT..IADN..F..D.AK..
Retrocopy-LCEKG>SQNYVNGKTDHREH<LDKNSVRC*ATMLIADNVAFPND*AKKE

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_757 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 99 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000151453 retrocopies
Bos taurus ENSBTAG000000109312 retrocopies
Canis familiaris ENSCAFG000000038857 retrocopies
Callithrix jacchus ENSCJAG000000136503 retrocopies
Cavia porcellus ENSCPOG000000033541 retrocopy
Dasypus novemcinctus ENSDNOG0000001586715 retrocopies
Dipodomys ordii ENSDORG000000151612 retrocopies
Equus caballus ENSECAG000000040234 retrocopies
Erinaceus europaeus ENSEEUG000000108372 retrocopies
Felis catus ENSFCAG000000065688 retrocopies
Homo sapiens ENSG000001060281 retrocopy
Gorilla gorilla ENSGGOG000000096153 retrocopies
Loxodonta africana ENSLAFG000000115261 retrocopy
Myotis lucifugus ENSMLUG000000071333 retrocopies
Macaca mulatta ENSMMUG000000224423 retrocopies
Mustela putorius furoENSMPUG000000032575 retrocopies
Mus musculus ENSMUSG000000299113 retrocopies
Nomascus leucogenys ENSNLEG000000023612 retrocopies
Otolemur garnettii ENSOGAG00000016661 9 retrocopies
Procavia capensis ENSPCAG000000033831 retrocopy
Pongo abelii ENSPPYG000000180684 retrocopies
Pan troglodytes ENSPTRG000000197783 retrocopies
Pteropus vampyrus ENSPVAG000000062212 retrocopies
Rattus norvegicus ENSRNOG000000121004 retrocopies
Sus scrofa ENSSSCG000000164883 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000070074 retrocopies
Vicugna pacos ENSVPAG000000036791 retrocopy



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