RetrogeneDB ID:

retro_ogar_3086

Retrocopy
location
Organism:Bushbaby (Otolemur garnettii)
Coordinates:GL873711.1:2280432..2281408(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSOGAG00000031262
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSOGAG00000007478
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ogar_3086
TACCAGCACTATAAAGGAAGTGATTTTGACTGCGAGTTGAGACTGTTGATTCATCAGAGTCTGGCAGGAGGAATTATTGG
GGTGAAAGGTGCTAAAATCAAAGAACTTCGAGAGAACACTCAAACAACAATCAAGCTGTTCCAGGAATGCTGTCCTCATT
CCACTGACAGAGTCGTTCTTATTGGAGGAAAGCCTGATAGGGTCATAGAGTGCATAAAGATCATCCTTGATCTTATATCT
GAGTCTCCCATCAAAGGACTTGCACAGCCTTATGATCCCAATTTTTATGATGAAACCTATGACTATGGTGATTTTACGAT
GATGTTTGATGACCACCGTGGACTGCCCGTGGGATTCCCAATGCAAGGAAGAGGTGGTTTTGACAGAATGCCTCCTGGTC
GGAGTGAGCTTCCCATGCCTCCGTCTAGAAGAGATTATGATGACATGAGCCCTCGTAGAGGACCACCTCCCCCTCCTCCT
GGACGCGGTGGCCAGGGTGGTAGCAGAGCTCGGAATCTCCCTCCACCTCCACCACCACCACCTAGAGGAGGAGATCTAAT
GGCCTATGACAGAGGAGGAAGACCTGGGGACTGTTACGATGGAATGGTTGGTTTCAGTGCTGATGAAACTTGGGATTCTG
CAATAGATACATGGAGCCCATCAGAATGGCAGATGGCTTATGAACCACAGGGTGGCTCCGGATATGATTATCCTATGCAG
GGGATCGTGGCTCATATGGCGATCTTGGTGGACCTATTATTACTACACAAGTAACTATTCCCAAAGATTTGGCTGGATCT
ATTTTGGCAAAGGTGGTCAGCGGATTAAACAAATCCGTCATGAGTCGAGAGCTTCCATCAAAATCGATGAGCCTTTAGAA
GGATCCGAAGATCGGATCATTACCATTACAGGAACACAGGACCAGATACAGAATGCACTGTATTTACTGCAGAACAGTGT
GAAGCAATATTCTGAA

ORF - retro_ogar_3086 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 93.6 %
Parental protein coverage: 74.09 %
Number of stop codons detected: 0
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalYQHYKGSDFDCELRLLIHQSLAGGIIGVKGAKIKELRENTQTTIKLFQECCPHSTDRVVLIGGKPDRVVE
YQHYKGSDFDCELRLLIHQSLAGGIIGVKGAKIKELRENTQTTIKLFQECCPHSTDRVVLIGGKPDRV.E
RetrocopyYQHYKGSDFDCELRLLIHQSLAGGIIGVKGAKIKELRENTQTTIKLFQECCPHSTDRVVLIGGKPDRVIE
ParentalCIKIILDLISESPIKGRAQPYDPNFYDETYDYGGFTMMFDDRRGRPVGFPMRGRGGFDRMPPGRGGRPMP
CIKIILDLISESPIKG.AQPYDPNFYDETYDYG.FTMMFDD.RG.PVGFPM.GRGGFDRMPPGR...PMP
RetrocopyCIKIILDLISESPIKGLAQPYDPNFYDETYDYGDFTMMFDDHRGLPVGFPMQGRGGFDRMPPGRSELPMP
ParentalPSRRDYDDMSPRRGPPPPPPGRGGRGGSRARNLPLPPPPPPRGGDLMAYDRRGRPGDRYDGMVGFSADET
PSRRDYDDMSPRRGPPPPPPGRGG.GGSRARNLP.PPPPPPRGGDLMAYDR.GRPGD.YDGMVGFSADET
RetrocopyPSRRDYDDMSPRRGPPPPPPGRGGQGGSRARNLPPPPPPPPRGGDLMAYDRGGRPGDCYDGMVGFSADET
ParentalWDSAIDTWSPSEWQMAYEPQGGSGYDY-SYAGGRGSYGDLGGPIITTQVTIPKDLAGSII-GKGGQRIKQ
WDSAIDTWSPSEWQMAYEPQGGSGYDY.SYAG.RGSYGDLGGPIITTQVTIPKDLAGSI..GKGGQRIKQ
RetrocopyWDSAIDTWSPSEWQMAYEPQGGSGYDY<SYAGDRGSYGDLGGPIITTQVTIPKDLAGSIL<GKGGQRIKQ
ParentalIRHESGASIKIDEPLEGSEDRIITITGTQDQIQNAQYLLQNSVKQYAD
IRHES.ASIKIDEPLEGSEDRIITITGTQDQIQNA.YLLQNSVKQY..
RetrocopyIRHESRASIKIDEPLEGSEDRIITITGTQDQIQNALYLLQNSVKQYSE

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






RNA-Seq - click to see more details

Otolemur garnettii was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Otolemur garnettii was not studied using ChIP-Seq data.

EST - click to see more details

Otolemur garnettii was not studied using EST data.

TSS - click to see more details

Otolemur garnettii was not studied using FANTOM5 data.

Lab - click to see more details

retro_ogar_3086 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 22 parental genes, and 50 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000211312 retrocopies
retro_btau_468, retro_btau_605,
Choloepus hoffmanni ENSCHOG000000108322 retrocopies
retro_chof_1023, retro_chof_1589,
Dasypus novemcinctus ENSDNOG000000000264 retrocopies
retro_dnov_1433, retro_dnov_1820, retro_dnov_2316, retro_dnov_2638,
Dipodomys ordii ENSDORG000000160241 retrocopy
retro_dord_673,
Homo sapiens ENSG000001651193 retrocopies
retro_hsap_2323, retro_hsap_2674, retro_hsap_3385,
Gorilla gorilla ENSGGOG000000155002 retrocopies
retro_ggor_1764, retro_ggor_1866,
Loxodonta africana ENSLAFG000000265671 retrocopy
retro_lafr_809,
Macropus eugenii ENSMEUG000000069753 retrocopies
retro_meug_271, retro_meug_357, retro_meug_484,
Microcebus murinus ENSMICG000000157803 retrocopies
retro_mmur_1562, retro_mmur_235, retro_mmur_448,
Myotis lucifugus ENSMLUG000000058712 retrocopies
retro_mluc_128, retro_mluc_561,
Macaca mulatta ENSMMUG000000188711 retrocopy
retro_mmul_2111,
Monodelphis domestica ENSMODG000000084021 retrocopy
retro_mdom_1666,
Mus musculus ENSMUSG000000215462 retrocopies
retro_mmus_1131, retro_mmus_2137,
Nomascus leucogenys ENSNLEG000000034863 retrocopies
retro_nleu_1178, retro_nleu_1815, retro_nleu_973,
Otolemur garnettii ENSOGAG00000007478 3 retrocopies
retro_ogar_2635, retro_ogar_2966, retro_ogar_3086 ,
Pongo abelii ENSPPYG000000193273 retrocopies
retro_pabe_2105, retro_pabe_2106, retro_pabe_42,
Sarcophilus harrisii ENSSHAG000000171091 retrocopy
retro_shar_820,
Sus scrofa ENSSSCG000000227601 retrocopy
retro_sscr_437,
Tupaia belangeri ENSTBEG000000012891 retrocopy
retro_tbel_2491,
Tarsius syrichta ENSTSYG000000011963 retrocopies
retro_tsyr_1664, retro_tsyr_1796, retro_tsyr_2149,
Tursiops truncatus ENSTTRG000000049061 retrocopy
retro_ttru_1622,
Tursiops truncatus ENSTTRG000000166937 retrocopies
retro_ttru_1144, retro_ttru_180, retro_ttru_1922, retro_ttru_444, retro_ttru_813, retro_ttru_930, retro_ttru_937,


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