RetrogeneDB ID:

retro_ogar_2687

Retrocopy
location
Organism:Bushbaby (Otolemur garnettii)
Coordinates:GL873648.1:818476..818867(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSOGAG00000027717
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:RPL27
Ensembl ID:ENSOGAG00000003940
Aliases:None
Description:ribosomal protein L27 [Source:HGNC Symbol;Acc:10328]


Retrocopy-Parental alignment summary:






>retro_ogar_2687
ATGGGCAAGTTCATGAAACCCAGTGGTGCTGTCCTGGCCAGATGCTACTCCAGATACAAAGCTGTCACCATGAACATTGA
TGATGGCACTGCAGATGCCCTTACAGCCATGCTCTGGAGGCTGGAATTGACTGCTATCCCCACAAAGTGACAGCTGCCAT
GGGCAAGGAGAAGATTGCCAAGAGATCAAAGATCAGATCTTTTGTCAACGTTTATAATCACCTCATGCCCATACAGTACT
CTGGGGATATCTCCTTGGGCAAAATCGTTGTAAACGAGGATGTCTTCAGCGACCCTGCTCTTAAACACAAGGCCCGAGGG
ATGCCAAGGTCAAGTCTGAAGAAAGGTTCAAGACAGACAAGAATAAGCGGTTCTTCCAGAAGCTGTGGTTT

ORF - retro_ogar_2687 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 71.74 %
Parental protein coverage: 100.0 %
Number of stop codons detected: 0
Number of frameshifts detected: 2


Retrocopy - Parental Gene Alignment:

ParentalMGKFMKPGKVVLVLAGRYSGRKAVIVKNIDDGTSDR-PYSHALVAGIDRYPRKVTAAMGKKKIAKRSKIK
MGKFMKP...VL..A..YS..KAV...NIDDGT.D..PYSHAL.AGID.YP.KVTAAMGK.KIAKRSKI.
RetrocopyMGKFMKPSGAVL--ARCYSRYKAVTM-NIDDGTADA<PYSHALEAGIDCYPHKVTAAMGKEKIAKRSKIR
ParentalSFVKVYNYNHLMPTRYSVDIPLDKTVVNKDVFRDPALKRKAR-REAKVKFEERYKTGKNKWFFQKLRF
SFV.V..YNHLMP..YS.DI.L.K.VVN.DVF.DPALK.KAR.R.AKVK.EER.KT.KNK.FFQKL.F
RetrocopySFVNV--YNHLMPIQYSGDISLGKIVVNEDVFSDPALKHKAR<RDAKVKSEERFKTDKNKRFFQKLWF

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_2687 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 30 parental genes, and 172 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000002003 retrocopies
retro_amel_122, retro_amel_37, retro_amel_674,
Bos taurus ENSBTAG000000174416 retrocopies
retro_btau_1113, retro_btau_129, retro_btau_1565, retro_btau_1855, retro_btau_338, retro_btau_394,
Canis familiaris ENSCAFG000000146306 retrocopies
retro_cfam_1193, retro_cfam_2109, retro_cfam_339, retro_cfam_364, retro_cfam_947, retro_cfam_959,
Callithrix jacchus ENSCJAG000000130679 retrocopies
retro_cjac_1345, retro_cjac_1350, retro_cjac_1543, retro_cjac_1630, retro_cjac_2210, retro_cjac_275, retro_cjac_2828, retro_cjac_369, retro_cjac_776,
Cavia porcellus ENSCPOG000000273593 retrocopies
retro_cpor_1178, retro_cpor_677, retro_cpor_715,
Equus caballus ENSECAG000000075001 retrocopy
retro_ecab_132,
Echinops telfairi ENSETEG0000000281123 retrocopies
retro_etel_1230, retro_etel_1250, retro_etel_1302, retro_etel_1312, retro_etel_1453, retro_etel_1496, retro_etel_160, retro_etel_177, retro_etel_2055, retro_etel_2170, retro_etel_278, retro_etel_306, retro_etel_349, retro_etel_415, retro_etel_461, retro_etel_467, retro_etel_548, retro_etel_555, retro_etel_751, retro_etel_753, retro_etel_775, retro_etel_805, retro_etel_971,
Felis catus ENSFCAG000000131426 retrocopies
retro_fcat_1026, retro_fcat_1184, retro_fcat_1824, retro_fcat_228, retro_fcat_698, retro_fcat_78,
Homo sapiens ENSG000001314696 retrocopies
retro_hsap_1161, retro_hsap_1312, retro_hsap_2112, retro_hsap_2204, retro_hsap_238, retro_hsap_3787,
Gorilla gorilla ENSGGOG000000260396 retrocopies
retro_ggor_1741, retro_ggor_1852, retro_ggor_2546, retro_ggor_2630, retro_ggor_298, retro_ggor_907,
Loxodonta africana ENSLAFG000000142203 retrocopies
retro_lafr_443, retro_lafr_739, retro_lafr_965,
Microcebus murinus ENSMICG000000142145 retrocopies
retro_mmur_1340, retro_mmur_1498, retro_mmur_1542, retro_mmur_673, retro_mmur_695,
Myotis lucifugus ENSMLUG000000041191 retrocopy
retro_mluc_359,
Macaca mulatta ENSMMUG000000080907 retrocopies
retro_mmul_1646, retro_mmul_1997, retro_mmul_418, retro_mmul_478, retro_mmul_52, retro_mmul_680, retro_mmul_925,
Monodelphis domestica ENSMODG000000151281 retrocopy
retro_mdom_1141,
Mustela putorius furoENSMPUG0000000991311 retrocopies
retro_mputfur_1041, retro_mputfur_1108, retro_mputfur_1182, retro_mputfur_1307, retro_mputfur_1530, retro_mputfur_303, retro_mputfur_413, retro_mputfur_595, retro_mputfur_675, retro_mputfur_735, retro_mputfur_980,
Mus musculus ENSMUSG000000633162 retrocopies
retro_mmus_223, retro_mmus_277,
Nomascus leucogenys ENSNLEG000000119012 retrocopies
retro_nleu_334, retro_nleu_45,
Oryctolagus cuniculus ENSOCUG000000038721 retrocopy
retro_ocun_263,
Otolemur garnettii ENSOGAG00000003940 14 retrocopies
retro_ogar_1091, retro_ogar_1297, retro_ogar_1478, retro_ogar_1692, retro_ogar_1887, retro_ogar_2189, retro_ogar_2354, retro_ogar_2625, retro_ogar_2687 , retro_ogar_2915, retro_ogar_3207, retro_ogar_3294, retro_ogar_3381, retro_ogar_618,
Procavia capensis ENSPCAG000000132494 retrocopies
retro_pcap_123, retro_pcap_146, retro_pcap_203, retro_pcap_227,
Pan troglodytes ENSPTRG000000092326 retrocopies
retro_ptro_127, retro_ptro_1673, retro_ptro_208, retro_ptro_2569, retro_ptro_794, retro_ptro_900,
Pteropus vampyrus ENSPVAG000000088174 retrocopies
retro_pvam_1084, retro_pvam_1231, retro_pvam_25, retro_pvam_509,
Rattus norvegicus ENSRNOG000000206748 retrocopies
retro_rnor_1150, retro_rnor_125, retro_rnor_1257, retro_rnor_1968, retro_rnor_2594, retro_rnor_2989, retro_rnor_386, retro_rnor_414,
Sorex araneus ENSSARG0000001113110 retrocopies
retro_sara_254, retro_sara_292, retro_sara_493, retro_sara_498, retro_sara_547, retro_sara_611, retro_sara_62, retro_sara_672, retro_sara_685, retro_sara_696,
Sarcophilus harrisii ENSSHAG000000120424 retrocopies
retro_shar_10, retro_shar_253, retro_shar_730, retro_shar_741,
Sus scrofa ENSSSCG000000255075 retrocopies
retro_sscr_109, retro_sscr_1154, retro_sscr_576, retro_sscr_683, retro_sscr_943,
Tarsius syrichta ENSTSYG0000000316712 retrocopies
retro_tsyr_1032, retro_tsyr_1154, retro_tsyr_1711, retro_tsyr_2036, retro_tsyr_381, retro_tsyr_476, retro_tsyr_602, retro_tsyr_787, retro_tsyr_816, retro_tsyr_822, retro_tsyr_95, retro_tsyr_989,
Tursiops truncatus ENSTTRG000000117392 retrocopies
retro_ttru_1049, retro_ttru_1535,
Vicugna pacos ENSVPAG000000025741 retrocopy
retro_vpac_324,


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