RetrogeneDB ID:

retro_ogar_420

Retrocopy
location
Organism:Bushbaby (Otolemur garnettii)
Coordinates:GL873521.1:22240943..22241458(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSOGAG00000024387
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:FAM213A
Ensembl ID:ENSOGAG00000013638
Aliases:None
Description:family with sequence similarity 213, member A [Source:HGNC Symbol;Acc:28651]


Retrocopy-Parental alignment summary:






>retro_ogar_420
CTGGAGGAGGAACCAAGTACTTTCAAAGCACAGGAACTATGGGAAAAGAATGGAGCTGTGACTGTGGCTGTGTGGAGGCC
AGGCTGCTGCTTCTGTGGAGAGGAGGCTTCCCACCTGTCCTTCCTGAAACCCAAGTTGGAGGAGCTGGGCATCCTCCACT
TTGCAGTGGTGAAAGAGGAGATTGGGACTGAAGTGAAGGACGTCCAGCCTTATTTCAAAGGAGAAATATTCCCAGATGAA
AAGAAAGTTCTATGGTTCACAAAGGCAGAAAATGATGTCAATGGGATTTATCCATCCGGGAGTGTGGTACAACTTCTTCT
GGGCTTGGAACGGAGGCTACTCTGGAAACCTGGAAGATGAAGGCTTCACGCTTAGGGGAGTTTTCGTGGTAGGATCAGGA
AAACAGGGCATCCTTCTAAAGTACCAAGAAAAAGAATTCGGAGACAAGTAAACCCACTTTCTGTACTTGAAGCTGTAGGA
AGATTAAATCACAGACATCACCTTCAGAGAAAAAA

ORF - retro_ogar_420 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 63.64 %
Parental protein coverage: 75.55 %
Number of stop codons detected: 1
Number of frameshifts detected 3


Retrocopy - Parental Gene Alignment:

ParentalLDKEPRTFKAKELWEKNGAVIMAVRRPGCFLCREEAADLSSLKPKLEELGIPLYAVV-KEQIGTEVKDFQ
L..EP.TFKA.ELWEKNGAV..AV.RPGC..C.EEA..LS.LKPKLEELGI...AVV.K...G.......
RetrocopyLEEEPSTFKAQELWEKNGAVTVAVWRPGCCFCGEEASHLSFLKPKLEELGILHFAVV>KRRLGLK*RTSS
ParentalPYFKGEIFLDEKKRFYGPQRRKMMFMGFIRLGVWYNFFRAWNGGYSGNLEGEGFILGGVFVVGSGKQXXX
...K.E.....K..FYG.QR.KMM.MGFI..GVWYNFF.AWNGGYSGNLE.EGF.L.GVFVVGSGKQ...
RetrocopyLISK-EKYSQMKRKFYGSQRQKMMSMGFIHPGVWYNFFWAWNGGYSGNLEDEGFTLRGVFVVGSGKQGIL
ParentalXXXXXXXFGDK-VNLLSVLEA-ARKIKSQASNSENK
.......FGDK.VN.LSVLEA..RKIKSQ.S.SE.K
RetrocopyLKYQEKEFGDK<VNPLSVLEA<CRKIKSQTSPSEKK

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_420 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 13 parental genes, and 30 retrocopies.

Species Parental gene accession Retrocopies number
Choloepus hoffmanni ENSCHOG000000008131 retrocopy
Callithrix jacchus ENSCJAG000000036571 retrocopy
Dasypus novemcinctus ENSDNOG000000019813 retrocopies
Homo sapiens ENSG000001223782 retrocopies
Gorilla gorilla ENSGGOG000000132462 retrocopies
Microcebus murinus ENSMICG000000074852 retrocopies
Macaca mulatta ENSMMUG000000217733 retrocopies
Mus musculus ENSMUSG000000217921 retrocopy
Otolemur garnettii ENSOGAG00000013638 7 retrocopies
Procavia capensis ENSPCAG000000096961 retrocopy
Pongo abelii ENSPPYG000000258624 retrocopies
Pan troglodytes ENSPTRG000000026852 retrocopies
Rattus norvegicus ENSRNOG000000111401 retrocopy



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