RetrogeneDB ID:

retro_ogar_3349

Retrocopy
location
Organism:Bushbaby (Otolemur garnettii)
Coordinates:GL873789.1:1087754..1088361(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSOGAG00000013056
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ogar_3349
ATGGGTGCCTGCAAGGACATCCAGGAGCTATGGAGGAAGGAACAGTCTGATGTAATGTGCTCTCTTCTGAGGATCTGCTG
CTGGCCGTATCACCAGATCTCTGCACTCCCCAGGGCTCCCTGCCCCACCTGGCTACATAAAGCTCCCAGACTAGGATAGC
AGGTCAAGCAAGGCTATGTCATATACAGGATTGATGTGCTCTGTAGTGGCCACCAACATCCAGTGCCTAAGGGTGCAAAC
TATGGCAAGGTTGTCCATCATGCTGTGAGGCAGCTGAAATTTGTTTGAAGCCTTTAGTCTATTGTCAAAGAGTAAGCTGG
GCACCACTGTGTACTGTAAGAGTCCTGAATCTGTACTGGGTTGGTGAAGATTCAGAGGACAGATTTTTTTGAGGTTATCC
TCATTGATCCATTCCATAAAGCTATCAGAAGAAATCCTGACATCCAGTGGATCACCAAACCAGTCCACAAGCACAGGGAA
ATGCGCGGGTTGACATCAGCAGGCCACCAAGAGCTGTGGCCTTGGAAAGGGCCATAAGTCCCTCCACACCATTGGCAGTT
CCTACTGCGCAGTGTGGAGAAGGCATAGTACTCTCCAGCTCCACCAG

ORF - retro_ogar_3349 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 70.73 %
Parental protein coverage: 99.02 %
Number of stop codons detected: 4
Number of frameshifts detected: 3


Retrocopy - Parental Gene Alignment:

ParentalMGAYKYIQELWRKKQSDVMRFLLRVRCWQYRQLSALHRAPRPTRPDKARRLGYKAKQGYVIYRIRVRRGG
MGA.K.IQELWRK.QSDVM..LLR..CW.Y.Q.SAL.RAP.PT...KA.RLG...KQGYVIYRI.V...G
RetrocopyMGACKDIQELWRKEQSDVMCSLLRICCWPYHQISALPRAPCPTWLHKAPRLG*QVKQGYVIYRIDVLCSG
ParentalRKRPVPKGATYGKPVHHGVNQLKFARSLQSVAEERAGRHC-GALRVLNSYWVGEDSTYK-FFEVILIDPF
...PVPKGA.YGK.VHH.V.QLKF..SL.S...E.AG.HC....RVLN.YWVGEDS....FFEVILIDPF
RetrocopyHQHPVPKGANYGKVVHHAVRQLKFV*SL*SIVKE*AGHHC<CTVRVLNLYWVGEDSEDR>FFEVILIDPF
ParentalHKAIRRNPDTQWITKPVHKHREMRGLTSAGR-KSRGLGKGHKFHHTIGGSRRAAWRRRNTLQLHR
HKAIRRNPD.QWITKPVHKHREMRGLTSAG..KS.GLGKGHK..HTIG.S..A.WRR..TLQLH.
RetrocopyHKAIRRNPDIQWITKPVHKHREMRGLTSAGH>KSCGLGKGHKSLHTIGSSYCAVWRRHSTLQLHQ

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_3349 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 24 parental genes, and 167 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000330802 retrocopies
retro_btau_152, retro_btau_201,
Canis familiaris ENSCAFG000000057645 retrocopies
retro_cfam_1003, retro_cfam_1159, retro_cfam_1630, retro_cfam_572, retro_cfam_656,
Cavia porcellus ENSCPOG000000022534 retrocopies
retro_cpor_620, retro_cpor_807, retro_cpor_900, retro_cpor_978,
Erinaceus europaeus ENSEEUG000000112865 retrocopies
retro_eeur_200, retro_eeur_28, retro_eeur_400, retro_eeur_685, retro_eeur_694,
Echinops telfairi ENSETEG000000150444 retrocopies
retro_etel_1438, retro_etel_431, retro_etel_658, retro_etel_943,
Felis catus ENSFCAG000000262376 retrocopies
retro_fcat_1820, retro_fcat_285, retro_fcat_306, retro_fcat_610, retro_fcat_930, retro_fcat_985,
Homo sapiens ENSG0000017474814 retrocopies
retro_hsap_1294, retro_hsap_1804, retro_hsap_2160, retro_hsap_2870, retro_hsap_2927, retro_hsap_3095, retro_hsap_3422, retro_hsap_3661, retro_hsap_3792, retro_hsap_592, retro_hsap_631, retro_hsap_791, retro_hsap_930, retro_hsap_957,
Gorilla gorilla ENSGGOG0000002427413 retrocopies
retro_ggor_1327, retro_ggor_1611, retro_ggor_1716, retro_ggor_1989, retro_ggor_2029, retro_ggor_2125, retro_ggor_2314, retro_ggor_2473, retro_ggor_39, retro_ggor_524, retro_ggor_552, retro_ggor_654, retro_ggor_771,
Loxodonta africana ENSLAFG000000041551 retrocopy
retro_lafr_677,
Macropus eugenii ENSMEUG000000145223 retrocopies
retro_meug_1678, retro_meug_2006, retro_meug_2112,
Myotis lucifugus ENSMLUG0000001380915 retrocopies
retro_mluc_1357, retro_mluc_1709, retro_mluc_1720, retro_mluc_2052, retro_mluc_2142, retro_mluc_2454, retro_mluc_425, retro_mluc_623, retro_mluc_701, retro_mluc_714, retro_mluc_748, retro_mluc_749, retro_mluc_907, retro_mluc_943, retro_mluc_99,
Macaca mulatta ENSMMUG000000063531 retrocopy
retro_mmul_209,
Monodelphis domestica ENSMODG000000148803 retrocopies
retro_mdom_1315, retro_mdom_1803, retro_mdom_918,
Mustela putorius furoENSMPUG000000121487 retrocopies
retro_mputfur_1011, retro_mputfur_1252, retro_mputfur_1291, retro_mputfur_314, retro_mputfur_346, retro_mputfur_658, retro_mputfur_669,
Mus musculus ENSMUSG000000124052 retrocopies
retro_mmus_118, retro_mmus_8,
Nomascus leucogenys ENSNLEG000000035801 retrocopy
retro_nleu_80,
Oryctolagus cuniculus ENSOCUG000000109612 retrocopies
retro_ocun_215, retro_ocun_228,
Otolemur garnettii ENSOGAG00000013056 13 retrocopies
retro_ogar_1066, retro_ogar_1129, retro_ogar_1182, retro_ogar_1453, retro_ogar_1483, retro_ogar_1629, retro_ogar_1809, retro_ogar_2378, retro_ogar_270, retro_ogar_3058, retro_ogar_3096, retro_ogar_3349 , retro_ogar_903,
Procavia capensis ENSPCAG000000119951 retrocopy
retro_pcap_265,
Rattus norvegicus ENSRNOG0000000814017 retrocopies
retro_rnor_1046, retro_rnor_1409, retro_rnor_1497, retro_rnor_1685, retro_rnor_1690, retro_rnor_1785, retro_rnor_2042, retro_rnor_2249, retro_rnor_2313, retro_rnor_2451, retro_rnor_2473, retro_rnor_2786, retro_rnor_2997, retro_rnor_428, retro_rnor_66, retro_rnor_710, retro_rnor_844,
Sus scrofa ENSSSCG000000280795 retrocopies
retro_sscr_1219, retro_sscr_1225, retro_sscr_448, retro_sscr_968, retro_sscr_997,
Ictidomys tridecemlineatus ENSSTOG000000111534 retrocopies
retro_itri_1445, retro_itri_1838, retro_itri_479, retro_itri_785,
Tupaia belangeri ENSTBEG0000000984334 retrocopies
retro_tbel_1031, retro_tbel_1072, retro_tbel_1322, retro_tbel_1346, retro_tbel_1363, retro_tbel_1524, retro_tbel_1668, retro_tbel_1931, retro_tbel_1980, retro_tbel_2035, retro_tbel_2212, retro_tbel_2270, retro_tbel_2453, retro_tbel_2634, retro_tbel_2818, retro_tbel_3196, retro_tbel_3208, retro_tbel_3387, retro_tbel_3449, retro_tbel_352, retro_tbel_3936, retro_tbel_4079, retro_tbel_4417, retro_tbel_4433, retro_tbel_4477, retro_tbel_4564, retro_tbel_4705, retro_tbel_476, retro_tbel_555, retro_tbel_727, retro_tbel_746, retro_tbel_84, retro_tbel_929, retro_tbel_992,
Tursiops truncatus ENSTTRG000000072445 retrocopies
retro_ttru_1305, retro_ttru_1358, retro_ttru_280, retro_ttru_920, retro_ttru_987,


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