RetrogeneDB ID:

retro_ogar_1496

Retrocopy
location
Organism:Bushbaby (Otolemur garnettii)
Coordinates:GL873549.1:6931658..6932235(-)
Located in intron of:ENSOGAG00000008585
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSOGAG00000004625
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ogar_1496
CATGGCAGAGGCTACCACGTGGCCATCACAGCCAAACAGGTACAGCTGGGCCCAAAGGTGGTTATTGTGCATTGCGAGGG
CATCAGTGTTTCTGGCAATTTCTACAGAAACAAGTTAAAGTACCTAGCCTTCCTGAGCAGGCAGATGAACACCAACCCAT
CCTTGGCCCCTATTGTTTCCAGGCACCTGGCTGCGTTTCCTTGGGGGGCTGTGCAAAGCCTGATGTCCCGCAAGACCAAG
CGAGGCCAGGCTGCCCTGGACAGCCTCATGGTGATCAACAGGAATCCCATCTTCCTATGATAAGGAAAAGTAGATGGCTG
GTTTCTGCTGCCCTCAAGGTTGTGGGTCTAAAGTCTGGGAGAAAATCTGTCTACTGGGGTGGCAGGCAAAGGAGGCAGGA
GGCAGGCTGGAAGTGCCAGGCAGTGACAGCAACCCAGGGGGAGAAGAGGAAGGAGAAGGCCAAGACCCAGTACTGGAAGA
AAAACTGCCCACTAGGCTATAGGAGTAGGCCGAAAAGAACGTGGAGAAGAAAACTGACAAATACATGAAGGTCTACAAGG
CCCACGGACTCCCGGTC

ORF - retro_ogar_1496 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 60.91 %
Parental protein coverage: 93.6 %
Number of stop codons detected: 2
Number of frameshifts detected 5


Retrocopy - Parental Gene Alignment:

ParentalHLLGRLAAIVAKQVLLGRKVVVVRCEGINISGNFYRNKLKYLAFLRKRMNTNPS-RGPYHFRAPSRIF-W
H..G...AI.AKQV.LG.KVV.V.CEGI..SGNFYRNKLKYLAFL...MNTNPS..GPY.F.AP.....W
RetrocopyHGRGYHVAITAKQVQLGPKVVIVHCEGISVSGNFYRNKLKYLAFLSRQMNTNPS<LGPYCFQAPGCVS>W
ParentalRTVRGMLPHKTKRGQAALDRLKVFD-GIPPPYDKKK-RMVVPAALRVVRLKPTRKFAYLG--RLAHEVGW
..V......KTKRGQAALD.L.V...GIP..YDK.K.R..V.AAL.VV.LK..RK..Y.G......E.GW
RetrocopyGAVQSLMSRKTKRGQAALDSLMVIN>GIPSSYDKEK>RWLVSAALKVVGLKSGRKSVYWGGRQRRQEAGW
ParentalKYQAVTATLEEKRKEKAKIHYRKK-KQLMRLRKQAEKNVEKKIDKYTEVLKTHGLLV
K.QAVTAT..EKRKEKAK..Y.KK.K...RL...AEKNVEKK.DKY..V.K.HGL.V
RetrocopyKCQAVTATQGEKRKEKAKTQYWKK<KLPTRL*E*AEKNVEKKTDKYMKVYKAHGLPV

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_1496 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 25 parental genes, and 153 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000052963 retrocopies
retro_btau_1251, retro_btau_719, retro_btau_789,
Callithrix jacchus ENSCJAG0000000007216 retrocopies
retro_cjac_1130, retro_cjac_1706, retro_cjac_182, retro_cjac_197, retro_cjac_1997, retro_cjac_2170, retro_cjac_2322, retro_cjac_2467, retro_cjac_2468, retro_cjac_2665, retro_cjac_2699, retro_cjac_2755, retro_cjac_3009, retro_cjac_664, retro_cjac_941, retro_cjac_972,
Cavia porcellus ENSCPOG000000124172 retrocopies
retro_cpor_1000, retro_cpor_888,
Equus caballus ENSECAG000000158323 retrocopies
retro_ecab_388, retro_ecab_653, retro_ecab_773,
Erinaceus europaeus ENSEEUG000000140716 retrocopies
retro_eeur_168, retro_eeur_310, retro_eeur_315, retro_eeur_484, retro_eeur_562, retro_eeur_618,
Echinops telfairi ENSETEG000000170762 retrocopies
retro_etel_46, retro_etel_853,
Felis catus ENSFCAG000000091944 retrocopies
retro_fcat_1197, retro_fcat_1649, retro_fcat_324, retro_fcat_548,
Gorilla gorilla ENSGGOG0000000293211 retrocopies
retro_ggor_12, retro_ggor_1739, retro_ggor_214, retro_ggor_2271, retro_ggor_2737, retro_ggor_334, retro_ggor_6, retro_ggor_615, retro_ggor_627, retro_ggor_846, retro_ggor_869,
Loxodonta africana ENSLAFG000000162133 retrocopies
retro_lafr_1160, retro_lafr_576, retro_lafr_810,
Microcebus murinus ENSMICG000000093186 retrocopies
retro_mmur_240, retro_mmur_283, retro_mmur_311, retro_mmur_359, retro_mmur_65, retro_mmur_736,
Myotis lucifugus ENSMLUG0000000494510 retrocopies
retro_mluc_1015, retro_mluc_1342, retro_mluc_1836, retro_mluc_1894, retro_mluc_2219, retro_mluc_2221, retro_mluc_2427, retro_mluc_2471, retro_mluc_2506, retro_mluc_675,
Macaca mulatta ENSMMUG0000000755114 retrocopies
retro_mmul_1100, retro_mmul_1256, retro_mmul_1638, retro_mmul_1756, retro_mmul_2179, retro_mmul_2249, retro_mmul_2352, retro_mmul_2399, retro_mmul_296, retro_mmul_500, retro_mmul_520, retro_mmul_547, retro_mmul_837, retro_mmul_924,
Mustela putorius furoENSMPUG000000026043 retrocopies
retro_mputfur_1418, retro_mputfur_853, retro_mputfur_935,
Mus musculus ENSMUSG000000741293 retrocopies
retro_mmus_1129, retro_mmus_1334, retro_mmus_20,
Nomascus leucogenys ENSNLEG0000000521123 retrocopies
retro_nleu_1173, retro_nleu_1429, retro_nleu_1568, retro_nleu_159, retro_nleu_1823, retro_nleu_1873, retro_nleu_1892, retro_nleu_1897, retro_nleu_2047, retro_nleu_228, retro_nleu_2398, retro_nleu_2415, retro_nleu_2463, retro_nleu_2614, retro_nleu_2789, retro_nleu_2928, retro_nleu_330, retro_nleu_392, retro_nleu_441, retro_nleu_475, retro_nleu_513, retro_nleu_744, retro_nleu_760,
Otolemur garnettii ENSOGAG00000004625 7 retrocopies
retro_ogar_1496 , retro_ogar_211, retro_ogar_2254, retro_ogar_3148, retro_ogar_54, retro_ogar_596, retro_ogar_612,
Ochotona princeps ENSOPRG000000011943 retrocopies
retro_opri_316, retro_opri_764, retro_opri_806,
Procavia capensis ENSPCAG000000040864 retrocopies
retro_pcap_163, retro_pcap_290, retro_pcap_415, retro_pcap_416,
Pongo abelii ENSPPYG000000102511 retrocopy
retro_pabe_148,
Pan troglodytes ENSPTRG000000112981 retrocopy
retro_ptro_31,
Pteropus vampyrus ENSPVAG000000109583 retrocopies
retro_pvam_129, retro_pvam_625, retro_pvam_771,
Rattus norvegicus ENSRNOG0000002061810 retrocopies
retro_rnor_1073, retro_rnor_1112, retro_rnor_1212, retro_rnor_1292, retro_rnor_1357, retro_rnor_1742, retro_rnor_564, retro_rnor_593, retro_rnor_665, retro_rnor_988,
Sus scrofa ENSSSCG000000031664 retrocopies
retro_sscr_290, retro_sscr_300, retro_sscr_392, retro_sscr_743,
Tarsius syrichta ENSTSYG000000087914 retrocopies
retro_tsyr_1363, retro_tsyr_437, retro_tsyr_620, retro_tsyr_920,
Tursiops truncatus ENSTTRG000000054857 retrocopies
retro_ttru_1304, retro_ttru_1736, retro_ttru_629, retro_ttru_735, retro_ttru_833, retro_ttru_971, retro_ttru_995,


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