RetrogeneDB ID:

retro_ogar_1309

Retrocopy
location
Organism:Bushbaby (Otolemur garnettii)
Coordinates:GL873542.1:2028257..2028698(-)
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:ENSOGAG00000004497
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ogar_1309
ATAGCCATGGGGTCCAAGGGGCCACTGCAATCCCATGCAGGTCTTCAGATGCAAGAAAACCACCATAGTCATAGTGTGCT
GCAAATGCAGCAATGGCCTTATCGAGACAAACAGGTGGCCCTTGGAGATGATCGAGCCACACACACCACAGTACAAGTAA
CCAGAGCCTGTTCTGCTTCTGGGCAAGGAGTGGTTTGCTGGTGTGGACACCCAGGTCCTTGTGAAAGTGGTGGTCATGTG
GTACAAATTTGTGCTATCCATCAGTCCATCTCCAAAGCCCTGGTGACCTATTACTAGAAATATGTGGATAAGGCTTCCAA
GAAGGAGACCAAAGATGTCTTCATCCAGTATGACCAGACTCTGCCGGTAGATGACCCCCGTCACCGTGAATCTAAAAAGT
TTAGAGGCTCTGGTGCCTTAGCTCACTACCAAAAATCTTAC

ORF - retro_ogar_1309 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 69.13 %
Parental protein coverage: 99.32 %
Number of stop codons detected: 2
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalVAMPSKGPLQS-VQVFGRKKTATAVAHCKRGNGLIKVNGRPLEMIEPRTLQYKLLEPVLLLGKERFAGVD
.AM.SKGPLQS..QVF..KKT......CK..NGLI..N..PLEMIEP.T.QYK..EPVLLLGKE.FAGVD
RetrocopyIAMGSKGPLQS>MQVFRCKKTTIVIVCCKCSNGLIETNRWPLEMIEPHTPQYK*PEPVLLLGKEWFAGVD
ParentalIRVRVK-GGGHVAQIYAIRQSISKALVAYYQKYVDEASKKEIKDILIQYDRTLLVADPRRCESKKFGGPG
..V.VK..GGHV.QI.AI.QSISKALV.YY.KYVD.ASKKE.KD..IQYD.TL.V.DPR..ESKKF.G.G
RetrocopyTQVLVK<SGGHVVQICAIHQSISKALVTYY*KYVDKASKKETKDVFIQYDQTLPVDDPRHRESKKFRGSG
ParentalARARYQKSY
A.A.YQKSY
RetrocopyALAHYQKSY

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_1309 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 33 parental genes, and 149 retrocopies.

Species Parental gene accession Retrocopies number
Anolis carolinensis ENSACAG000000141761 retrocopy
retro_acar_194,
Ailuropoda melanoleuca ENSAMEG000000084708 retrocopies
retro_amel_1105, retro_amel_1143, retro_amel_1463, retro_amel_1790, retro_amel_1865, retro_amel_306, retro_amel_668, retro_amel_840,
Bos taurus ENSBTAG000000210933 retrocopies
retro_btau_1509, retro_btau_167, retro_btau_441,
Canis familiaris ENSCAFG000000055016 retrocopies
retro_cfam_1349, retro_cfam_1754, retro_cfam_2142, retro_cfam_2147, retro_cfam_799, retro_cfam_908,
Callithrix jacchus ENSCJAG000000141706 retrocopies
retro_cjac_2641, retro_cjac_2737, retro_cjac_3019, retro_cjac_885, retro_cjac_905, retro_cjac_949,
Cavia porcellus ENSCPOG000000113593 retrocopies
retro_cpor_1266, retro_cpor_1408, retro_cpor_1515,
Dasypus novemcinctus ENSDNOG000000015273 retrocopies
retro_dnov_2260, retro_dnov_2315, retro_dnov_308,
Equus caballus ENSECAG000000043112 retrocopies
retro_ecab_186, retro_ecab_779,
Echinops telfairi ENSETEG000000152904 retrocopies
retro_etel_1825, retro_etel_1834, retro_etel_193, retro_etel_351,
Felis catus ENSFCAG000000107434 retrocopies
retro_fcat_1258, retro_fcat_1709, retro_fcat_1806, retro_fcat_1976,
Homo sapiens ENSG0000010519311 retrocopies
retro_hsap_118, retro_hsap_1658, retro_hsap_1736, retro_hsap_1977, retro_hsap_2064, retro_hsap_2230, retro_hsap_2327, retro_hsap_3593, retro_hsap_4209, retro_hsap_787, retro_hsap_813,
Gorilla gorilla ENSGGOG0000001441410 retrocopies
retro_ggor_110, retro_ggor_1250, retro_ggor_1344, retro_ggor_1664, retro_ggor_1766, retro_ggor_193, retro_ggor_2423, retro_ggor_2819, retro_ggor_652, retro_ggor_667,
Loxodonta africana ENSLAFG000000015411 retrocopy
retro_lafr_1191,
Macropus eugenii ENSMEUG000000103802 retrocopies
retro_meug_1306, retro_meug_612,
Microcebus murinus ENSMICG000000061104 retrocopies
retro_mmur_1006, retro_mmur_1058, retro_mmur_375, retro_mmur_798,
Myotis lucifugus ENSMLUG000000290895 retrocopies
retro_mluc_1906, retro_mluc_2096, retro_mluc_2174, retro_mluc_2529, retro_mluc_481,
Macaca mulatta ENSMMUG000000193708 retrocopies
retro_mmul_1018, retro_mmul_1080, retro_mmul_1175, retro_mmul_1219, retro_mmul_1403, retro_mmul_20, retro_mmul_767, retro_mmul_862,
Monodelphis domestica ENSMODG000000135454 retrocopies
retro_mdom_1668, retro_mdom_1823, retro_mdom_815, retro_mdom_856,
Mustela putorius furoENSMPUG000000177225 retrocopies
retro_mputfur_283, retro_mputfur_322, retro_mputfur_447, retro_mputfur_701, retro_mputfur_985,
Mus musculus ENSMUSG0000003756311 retrocopies
retro_mmus_1780, retro_mmus_2058, retro_mmus_2125, retro_mmus_2697, retro_mmus_2727, retro_mmus_3091, retro_mmus_3173, retro_mmus_3198, retro_mmus_3202, retro_mmus_700, retro_mmus_771,
Nomascus leucogenys ENSNLEG000000143883 retrocopies
retro_nleu_1266, retro_nleu_248, retro_nleu_46,
Oryctolagus cuniculus ENSOCUG0000000215014 retrocopies
retro_ocun_1028, retro_ocun_1073, retro_ocun_1394, retro_ocun_1430, retro_ocun_1436, retro_ocun_1774, retro_ocun_371, retro_ocun_580, retro_ocun_632, retro_ocun_645, retro_ocun_670, retro_ocun_837, retro_ocun_906, retro_ocun_986,
Otolemur garnettii ENSOGAG00000004497 4 retrocopies
retro_ogar_1229, retro_ogar_1309 , retro_ogar_1313, retro_ogar_98,
Oreochromis niloticus ENSONIG000000000061 retrocopy
retro_onil_52,
Pelodiscus sinensis ENSPSIG000000169301 retrocopy
retro_psin_55,
Pan troglodytes ENSPTRG0000001097011 retrocopies
retro_ptro_1223, retro_ptro_1318, retro_ptro_1376, retro_ptro_1577, retro_ptro_1699, retro_ptro_2432, retro_ptro_2857, retro_ptro_2953, retro_ptro_2957, retro_ptro_548, retro_ptro_565,
Rattus norvegicus ENSRNOG000000195783 retrocopies
retro_rnor_10, retro_rnor_1823, retro_rnor_302,
Sorex araneus ENSSARG000000008521 retrocopy
retro_sara_595,
Sus scrofa ENSSSCG000000107121 retrocopy
retro_sscr_731,
Sus scrofa ENSSSCG000000208173 retrocopies
retro_sscr_478, retro_sscr_5, retro_sscr_723,
Ictidomys tridecemlineatus ENSSTOG000000067941 retrocopy
retro_itri_321,
Tarsius syrichta ENSTSYG000000052414 retrocopies
retro_tsyr_1115, retro_tsyr_1208, retro_tsyr_1492, retro_tsyr_1780,
Tursiops truncatus ENSTTRG000000035711 retrocopy
retro_ttru_202,


Copyright © RetrogeneDB 2014-2017