RetrogeneDB ID:

retro_ecab_811

Retrocopy
location
Organism:Horse (Equus caballus)
Coordinates:4:52147629..52148038(-)
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:ENSECAG00000017514
Aliases:None
Description:60S ribosomal protein L6 [Source:UniProtKB/TrEMBL;Acc:F6QF58]


Retrocopy-Parental alignment summary:






>retro_ecab_811
CCACTTGGTGGTGACAAGAATGGTGGTACTCAAGTGGTTAACTTCACAAAATACCTAGATATTATCCTACTGAAGATGTG
CCTGAAAAGCTATTGAGCCACTTCAAAAATCCCTTCAGTCAGCATGTGAGAAAACTCCAAGCTAACATCACTCCCAGGAC
AATTCTGATCATCCTCACTGGGCACCACAGAGGCAAGAGGGTGATTTTCCTGAAGCAGCTGAGCAGTGGCTTGCTACTTT
TGACTGGGCCTCTGATCCTCAGTTGAGTTCCTCTGTGTAGAACACACCAGAAATTTGTCATCTCTACCTCCACCAAAATT
GATATCAGTAATGTGAAAATCCCACAATATCTCACGATGCTTACTTCAGAAAGAAGAAGCTTGGTAAGTCCAGACACCAG
GAATGTGAG

ORF - retro_ecab_811 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 78.42 %
Parental protein coverage: 52.09 %
Number of stop codons detected: 1
Number of frameshifts detected: 2


Retrocopy - Parental Gene Alignment:

ParentalPVGGDKNGGTRVVK-LRKMPRYYPTEDVPRKLLSHGKKPFSQHVRKLRASITPGTILIILTGRHRGKRVV
P.GGDKNGGT.VV..L.K.PRYYPTEDVP.KLLSH.K.PFSQHVRKL.A.ITP.TILIILTG.HRGKRV.
RetrocopyPLGGDKNGGTQVVN<LHKIPRYYPTEDVPEKLLSHFKNPFSQHVRKLQANITPRTILIILTGHHRGKRVI
ParentalFLKQLGSGLLLVTGPLVLNRVPLRRTHQKFVIATSTKIDISGVKIPKHLT-DAYFKKKQLRKPRHQEGE
FLKQL.SGLLL.TGPL.L..VPL.RTHQKFVI.TSTKIDIS.VKIP..LT.DAYF.KK.L.K.RHQE.E
RetrocopyFLKQLSSGLLLLTGPLILS*VPLCRTHQKFVISTSTKIDISNVKIPQYLT<DAYFRKKKLGKSRHQECE

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






(Hint: click retrocopy or parental gene accession number on the plot's legend, to show / hide expression level values)

Expression validation based on RNA-Seq data:
Library Retrocopy expression Parental gene expression
SRP021940_articular_cartilage 0 .00 RPM 87 .36 RPM
SRP021940_cerebellum 0 .05 RPM 18 .80 RPM
SRP021940_embryo 0 .08 RPM 52 .58 RPM
SRP021940_placental_villous 0 .05 RPM 35 .31 RPM
SRP021940_synovial_membrane 0 .03 RPM 38 .60 RPM
SRP021940_testis 0 .00 RPM 17 .71 RPM
Equus caballus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ecab_811 retrocopy.
Equus caballus was not studied using FANTOM5 data.
retro_ecab_811 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ecab_811 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 33 parental genes, and 835 retrocopies.

Species Parental gene accession Retrocopies number
Anolis carolinensis ENSACAG000000030601 retrocopy
Ailuropoda melanoleuca ENSAMEG0000000851010 retrocopies
Bos taurus ENSBTAG000000317236 retrocopies
Canis familiaris ENSCAFG000000088731 retrocopy
Choloepus hoffmanni ENSCHOG0000000291713 retrocopies
Callithrix jacchus ENSCJAG000000124507 retrocopies
Cavia porcellus ENSCPOG000000135268 retrocopies
Dasypus novemcinctus ENSDNOG000000170323 retrocopies
Dipodomys ordii ENSDORG000000057931 retrocopy
Equus caballus ENSECAG00000017514 1 retrocopy
retro_ecab_811 ,
Erinaceus europaeus ENSEEUG000000002813 retrocopies
Felis catus ENSFCAG0000000685812 retrocopies
Homo sapiens ENSG0000008900926 retrocopies
Gorilla gorilla ENSGGOG0000000337216 retrocopies
Loxodonta africana ENSLAFG000000022012 retrocopies
Microcebus murinus ENSMICG0000000296125 retrocopies
Macaca mulatta ENSMMUG000000074331 retrocopy
Monodelphis domestica ENSMODG000000030964 retrocopies
Mustela putorius furoENSMPUG000000025269 retrocopies
Mus musculus ENSMUSG0000002961413 retrocopies
Nomascus leucogenys ENSNLEG000000270932 retrocopies
Oryctolagus cuniculus ENSOCUG000000038025 retrocopies
Ochotona princeps ENSOPRG000000118002 retrocopies
Pongo abelii ENSPPYG0000002585513 retrocopies
Pteropus vampyrus ENSPVAG000000124092 retrocopies
Rattus norvegicus ENSRNOG000000259361 retrocopy
Sarcophilus harrisii ENSSHAG000000070962 retrocopies
Sus scrofa ENSSSCG000000248254 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000094093 retrocopies
Tupaia belangeri ENSTBEG00000008626605 retrocopies
retro_tbel_1003, retro_tbel_1011, retro_tbel_1018, retro_tbel_1025, retro_tbel_1035, retro_tbel_1039, retro_tbel_104, retro_tbel_1041, retro_tbel_1042, retro_tbel_105, retro_tbel_1064, retro_tbel_1074, retro_tbel_1077, retro_tbel_1080, retro_tbel_1085, retro_tbel_109, retro_tbel_1094, retro_tbel_1096, retro_tbel_1097, retro_tbel_111, retro_tbel_1110, retro_tbel_1116, retro_tbel_1124, retro_tbel_1131, retro_tbel_1142, retro_tbel_1145, retro_tbel_1157, retro_tbel_1159, retro_tbel_1163, retro_tbel_1172, retro_tbel_118, retro_tbel_1187, retro_tbel_1192, retro_tbel_1197, retro_tbel_120, retro_tbel_1211, retro_tbel_1212, retro_tbel_1214, retro_tbel_1221, retro_tbel_1234, retro_tbel_1236, retro_tbel_1238, retro_tbel_1240, retro_tbel_1242, retro_tbel_1252, retro_tbel_1253, retro_tbel_1256, retro_tbel_1276, retro_tbel_128, retro_tbel_1287, retro_tbel_1291, retro_tbel_1292, retro_tbel_1297, retro_tbel_1307, retro_tbel_1308, retro_tbel_1309, retro_tbel_1316, retro_tbel_132, retro_tbel_1321, retro_tbel_1325, retro_tbel_1326, retro_tbel_1339, retro_tbel_1341, retro_tbel_1342, retro_tbel_1353, retro_tbel_1376, retro_tbel_139, retro_tbel_1399, retro_tbel_1401, retro_tbel_1408, retro_tbel_1409, retro_tbel_1412, retro_tbel_1432, retro_tbel_1438, retro_tbel_144, retro_tbel_1440, retro_tbel_1441, retro_tbel_1445, retro_tbel_1447, retro_tbel_1453, retro_tbel_1455, retro_tbel_1458, retro_tbel_1464, retro_tbel_1495, retro_tbel_1496, retro_tbel_150, retro_tbel_1508, retro_tbel_1511, retro_tbel_1517, retro_tbel_1520, retro_tbel_1526, retro_tbel_1536, retro_tbel_1544, retro_tbel_1547, retro_tbel_1553, retro_tbel_1559, retro_tbel_1560, retro_tbel_1578, retro_tbel_158, retro_tbel_1581, retro_tbel_1582, retro_tbel_1585, retro_tbel_1598, retro_tbel_1628, retro_tbel_1631, retro_tbel_1640, retro_tbel_1648, retro_tbel_165, retro_tbel_1652, retro_tbel_1660, retro_tbel_1670, retro_tbel_1672, retro_tbel_1674, retro_tbel_1679, retro_tbel_1681, retro_tbel_1687, retro_tbel_1691, retro_tbel_1702, retro_tbel_1703, retro_tbel_1706, retro_tbel_1732, retro_tbel_1736, retro_tbel_1737, retro_tbel_1742, retro_tbel_1743, retro_tbel_1751, retro_tbel_1759, retro_tbel_1771, retro_tbel_1782, retro_tbel_1788, retro_tbel_1799, retro_tbel_1805, retro_tbel_181, retro_tbel_1816, retro_tbel_1828, retro_tbel_1834, retro_tbel_1843, retro_tbel_1850, retro_tbel_1854, retro_tbel_1859, retro_tbel_186, retro_tbel_1867, retro_tbel_187, retro_tbel_1884, retro_tbel_1898, retro_tbel_190, retro_tbel_1900, retro_tbel_1909, retro_tbel_191, retro_tbel_192, retro_tbel_1926, retro_tbel_1927, retro_tbel_1937, retro_tbel_1949, retro_tbel_1953, retro_tbel_1956, retro_tbel_1961, retro_tbel_1974, retro_tbel_1983, retro_tbel_1985, retro_tbel_1990, retro_tbel_2003, retro_tbel_2007, retro_tbel_2012, retro_tbel_2018, retro_tbel_2019, retro_tbel_2029, retro_tbel_203, retro_tbel_2038, retro_tbel_2041, retro_tbel_2052, retro_tbel_2056, retro_tbel_2064, retro_tbel_2066, retro_tbel_2070, retro_tbel_2082, retro_tbel_2092, retro_tbel_2096, retro_tbel_2097, retro_tbel_212, retro_tbel_214, retro_tbel_215, retro_tbel_2158, retro_tbel_218, retro_tbel_2181, retro_tbel_2184, retro_tbel_2185, retro_tbel_219, retro_tbel_2222, retro_tbel_2235, retro_tbel_2237, retro_tbel_2244, retro_tbel_225, retro_tbel_2250, retro_tbel_2256, retro_tbel_2269, retro_tbel_227, retro_tbel_2273, retro_tbel_2275, retro_tbel_2301, retro_tbel_2305, retro_tbel_231, retro_tbel_2321, retro_tbel_2323, retro_tbel_233, retro_tbel_2331, retro_tbel_2342, retro_tbel_2375, retro_tbel_2389, retro_tbel_2396, retro_tbel_2411, retro_tbel_242, retro_tbel_2421, retro_tbel_243, retro_tbel_2446, retro_tbel_2456, retro_tbel_2471, retro_tbel_2476, retro_tbel_2481, retro_tbel_2499, retro_tbel_2501, retro_tbel_2502, retro_tbel_2507, retro_tbel_2509, retro_tbel_2514, retro_tbel_252, retro_tbel_2523, retro_tbel_2527, retro_tbel_253, retro_tbel_2530, retro_tbel_2533, retro_tbel_2537, retro_tbel_2546, retro_tbel_255, retro_tbel_256, retro_tbel_2560, retro_tbel_2565, retro_tbel_2568, retro_tbel_2594, retro_tbel_2597, retro_tbel_260, retro_tbel_2632, retro_tbel_2633, retro_tbel_2639, retro_tbel_2642, retro_tbel_2643, retro_tbel_2645, retro_tbel_2648, retro_tbel_2650, retro_tbel_2676, retro_tbel_2678, retro_tbel_2679, retro_tbel_2684, retro_tbel_2695, retro_tbel_2708, retro_tbel_2717, retro_tbel_2724, retro_tbel_2740, retro_tbel_2742, retro_tbel_2750, retro_tbel_2754, retro_tbel_278, retro_tbel_2785, retro_tbel_2791, retro_tbel_2796, retro_tbel_2797, retro_tbel_2800, retro_tbel_2803, retro_tbel_2804, retro_tbel_2805, retro_tbel_2812, retro_tbel_2817, retro_tbel_284, retro_tbel_2842, retro_tbel_2843, retro_tbel_2845, retro_tbel_2858, retro_tbel_2861, retro_tbel_2866, retro_tbel_2867, retro_tbel_287, retro_tbel_2870, retro_tbel_2876, retro_tbel_288, retro_tbel_2887, retro_tbel_291, retro_tbel_2912, retro_tbel_2914, retro_tbel_2919, retro_tbel_2920, retro_tbel_2928, retro_tbel_2958, retro_tbel_2968, retro_tbel_297, retro_tbel_2987, retro_tbel_2997, retro_tbel_300, retro_tbel_3003, retro_tbel_3009, retro_tbel_3012, retro_tbel_3019, retro_tbel_3029, retro_tbel_3030, retro_tbel_3034, retro_tbel_3036, retro_tbel_3038, retro_tbel_3039, retro_tbel_3043, retro_tbel_3045, retro_tbel_3047, retro_tbel_3049, retro_tbel_3052, retro_tbel_3053, retro_tbel_3057, retro_tbel_3063, retro_tbel_3064, retro_tbel_3066, retro_tbel_3068, retro_tbel_3078, retro_tbel_308, retro_tbel_3083, retro_tbel_3086, retro_tbel_3113, retro_tbel_3124, retro_tbel_3128, retro_tbel_313, retro_tbel_3131, retro_tbel_3133, retro_tbel_3139, retro_tbel_3146, retro_tbel_3157, retro_tbel_3158, retro_tbel_3163, retro_tbel_3166, retro_tbel_3169, retro_tbel_3176, retro_tbel_3177, retro_tbel_3178, retro_tbel_318, retro_tbel_3185, retro_tbel_3199, retro_tbel_3206, retro_tbel_321, retro_tbel_3221, retro_tbel_3225, retro_tbel_3226, retro_tbel_3249, retro_tbel_3257, retro_tbel_3263, retro_tbel_327, retro_tbel_3275, retro_tbel_3278, retro_tbel_3279, retro_tbel_3289, retro_tbel_3296, retro_tbel_3308, retro_tbel_3312, retro_tbel_3319, retro_tbel_3322, retro_tbel_3326, retro_tbel_3328, retro_tbel_334, retro_tbel_3348, retro_tbel_3357, retro_tbel_3374, retro_tbel_3375, retro_tbel_3382, retro_tbel_3394, retro_tbel_3395, retro_tbel_3411, retro_tbel_3427, retro_tbel_3433, retro_tbel_3439, retro_tbel_3440, retro_tbel_3455, retro_tbel_3474, retro_tbel_351, retro_tbel_3511, retro_tbel_3518, retro_tbel_3521, retro_tbel_3532, retro_tbel_3533, retro_tbel_3551, retro_tbel_3553, retro_tbel_3563, retro_tbel_3569, retro_tbel_357, retro_tbel_3574, retro_tbel_3579, retro_tbel_3582, retro_tbel_3584, retro_tbel_3588, retro_tbel_3594, retro_tbel_3599, retro_tbel_3612, retro_tbel_3614, retro_tbel_3629, retro_tbel_3633, retro_tbel_3643, retro_tbel_3645, retro_tbel_3646, retro_tbel_365, retro_tbel_3668, retro_tbel_3672, retro_tbel_3673, retro_tbel_368, retro_tbel_369, retro_tbel_3706, retro_tbel_3714, retro_tbel_3740, retro_tbel_3746, retro_tbel_3753, retro_tbel_376, retro_tbel_3765, retro_tbel_3768, retro_tbel_3773, retro_tbel_3778, retro_tbel_3787, retro_tbel_380, retro_tbel_3804, retro_tbel_3811, retro_tbel_3817, retro_tbel_3819, retro_tbel_3825, retro_tbel_3842, retro_tbel_3845, retro_tbel_3857, retro_tbel_3902, retro_tbel_3904, retro_tbel_3906, retro_tbel_3908, retro_tbel_3909, retro_tbel_3942, retro_tbel_3943, retro_tbel_3952, retro_tbel_3953, retro_tbel_3965, retro_tbel_3978, retro_tbel_3985, retro_tbel_3990, retro_tbel_3991, retro_tbel_4000, retro_tbel_4001, retro_tbel_4009, retro_tbel_403, retro_tbel_4038, retro_tbel_4040, retro_tbel_4041, retro_tbel_4044, retro_tbel_4060, retro_tbel_409, retro_tbel_4108, retro_tbel_4109, retro_tbel_4112, retro_tbel_4132, retro_tbel_4140, retro_tbel_4146, retro_tbel_4152, retro_tbel_4156, retro_tbel_4159, retro_tbel_4178, retro_tbel_4201, retro_tbel_4218, retro_tbel_4232, retro_tbel_424, retro_tbel_4248, retro_tbel_4253, retro_tbel_4264, retro_tbel_4267, retro_tbel_4276, retro_tbel_4281, retro_tbel_4291, retro_tbel_4301, retro_tbel_4303, retro_tbel_4306, retro_tbel_4321, retro_tbel_4328, retro_tbel_4333, retro_tbel_434, retro_tbel_4344, retro_tbel_4349, retro_tbel_4353, retro_tbel_4359, retro_tbel_437, retro_tbel_4375, retro_tbel_4394, retro_tbel_4395, retro_tbel_4396, retro_tbel_4397, retro_tbel_4445, retro_tbel_4446, retro_tbel_4455, retro_tbel_4468, retro_tbel_4476, retro_tbel_4483, retro_tbel_4508, retro_tbel_4517, retro_tbel_452, retro_tbel_4544, retro_tbel_4559, retro_tbel_4576, retro_tbel_4580, retro_tbel_4582, retro_tbel_4591, retro_tbel_4594, retro_tbel_4598, retro_tbel_4603, retro_tbel_4618, retro_tbel_4619, retro_tbel_4633, retro_tbel_4637, retro_tbel_464, retro_tbel_4640, retro_tbel_4662, retro_tbel_469, retro_tbel_4691, retro_tbel_4694, retro_tbel_4701, retro_tbel_4702, retro_tbel_4704, retro_tbel_4709, retro_tbel_4717, retro_tbel_4721, retro_tbel_4722, retro_tbel_4731, retro_tbel_478, retro_tbel_486, retro_tbel_493, retro_tbel_497, retro_tbel_498, retro_tbel_505, retro_tbel_506, retro_tbel_515, retro_tbel_516, retro_tbel_520, retro_tbel_523, retro_tbel_524, retro_tbel_529, retro_tbel_533, retro_tbel_546, retro_tbel_548, retro_tbel_549, retro_tbel_554, retro_tbel_557, retro_tbel_562, retro_tbel_568, retro_tbel_571, retro_tbel_581, retro_tbel_589, retro_tbel_608, retro_tbel_624, retro_tbel_625, retro_tbel_629, retro_tbel_630, retro_tbel_642, retro_tbel_651, retro_tbel_652, retro_tbel_653, retro_tbel_656, retro_tbel_660, retro_tbel_663, retro_tbel_668, retro_tbel_672, retro_tbel_684, retro_tbel_685, retro_tbel_690, retro_tbel_693, retro_tbel_694, retro_tbel_699, retro_tbel_708, retro_tbel_712, retro_tbel_717, retro_tbel_719, retro_tbel_72, retro_tbel_723, retro_tbel_724, retro_tbel_731, retro_tbel_748, retro_tbel_75, retro_tbel_769, retro_tbel_77, retro_tbel_773, retro_tbel_775, retro_tbel_778, retro_tbel_785, retro_tbel_797, retro_tbel_81, retro_tbel_837, retro_tbel_847, retro_tbel_85, retro_tbel_855, retro_tbel_858, retro_tbel_86, retro_tbel_876, retro_tbel_879, retro_tbel_890, retro_tbel_894, retro_tbel_895, retro_tbel_896, retro_tbel_904, retro_tbel_933, retro_tbel_944, retro_tbel_948, retro_tbel_951, retro_tbel_977,
Tarsius syrichta ENSTSYG0000000949222 retrocopies
Tursiops truncatus ENSTTRG000000092687 retrocopies
Vicugna pacos ENSVPAG000000070005 retrocopies



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