het siRNAsData from Lunardon et al. (2020)miRNA

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Genome

Solanum lycopersicum (Tomato) genome build 2.5 (sly-b2.5)

Version v2.5 of Solanum lycopersicum cv. Heinz 1706 from Ensembl Plants

Locus type


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Annotation source

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Family contains:

NameGenomeCoordinatesStrandReadsRPMMajor RNAFamilyLocus TypeAnnotation Source
sly-b2.5r1-1796Solanum lycopersicum (Tomato) 2.51:3838777-3838967+4,1542.81AUUCAUGAAUCGAACCUGAGACCUnearMIRNAShortStack
sly-b2.5r1-4476Solanum lycopersicum (Tomato) 2.51:24762940-24762958-980.07ACGACGGAACCCACGACGGACCAnearMIRNAShortStack
sly-b2.5r1-4765Solanum lycopersicum (Tomato) 2.51:28617863-28617883-3890.26UGUUGUGUUUGAAACUGAUUUnearMIRNAShortStack
sly-b2.5r1-4774Solanum lycopersicum (Tomato) 2.51:28828416-28828542-1,6791.14ACAAGAUAGUGCCACGUAGGACAnearMIRNAShortStack
sly-b2.5r1-5316Solanum lycopersicum (Tomato) 2.51:39535076-39535109-3530.24UAGUAGAGUCUUGCGGAACGGUAnearMIRNAShortStack
sly-b2.5r1-5317Solanum lycopersicum (Tomato) 2.51:39562569-39562686-1380.09AGAAGUCCGUGUCAAGCCAACUCUnearMIRNAShortStack
sly-b2.5r1-5331Solanum lycopersicum (Tomato) 2.51:40059628-40059697-8460.57GAUGAAUGAUAUGCAGGGCUUGUAnearMIRNAShortStack
sly-b2.5r1-7668Solanum lycopersicum (Tomato) 2.51:70980244-70980456-3,8092.58AUUAUGCGGACAACUUUAAAGGGUnearMIRNAShortStack
sly-b2.5r1-8031Solanum lycopersicum (Tomato) 2.51:73178496-73178519+9090.62ACAAGAUAGUGCCACGUAGGACAnearMIRNAShortStack
sly-b2.5r1-8709Solanum lycopersicum (Tomato) 2.51:75642438-75642474-2800.19UCAAGAAGGUUAAAGGCGGCAUAnearMIRNAShortStack
sly-b2.5r1-11001Solanum lycopersicum (Tomato) 2.51:81905153-81905324+1840.13AAAAACACAAUAUACUAGUGAUUUnearMIRNAShortStack
sly-b2.5r1-12530Solanum lycopersicum (Tomato) 2.51:85705804-85705876-1,2080.82AAAAGAAUGACCUGGUUUGACUUGmiR8019nearMIRNAShortStack
sly-b2.5r1-12952Solanum lycopersicum (Tomato) 2.51:86745245-86745356+8020.54GAGGAUUUGAACGUUUGAUAAUGUnearMIRNAShortStack
sly-b2.5r1-15189Solanum lycopersicum (Tomato) 2.51:92762129-92762384+2,2201.50UUGGCAUUCUGUCCACCUCCmiR394nearMIRNAShortStack
sly-b2.5r1-16284Solanum lycopersicum (Tomato) 2.51:95573060-95573082-1,2500.85UUGUGGGACAAAAAGAAGCCUnearMIRNAShortStack
sly-b2.5r1-17775Solanum lycopersicum (Tomato) 2.510:996031-996061+6200.42UGAAACCCCGUGUAUGACAUGnearMIRNAShortStack
sly-b2.5r1-18515Solanum lycopersicum (Tomato) 2.510:2358814-2358972-2,7081.83GAGAUAAUAGAACGCUGAUAAAGUnearMIRNAShortStack
sly-b2.5r1-19117Solanum lycopersicum (Tomato) 2.510:3437990-3438011-1520.10UCUUGCUCAAAUGAGUAUUCCAmiR828nearMIRNAShortStack
sly-b2.5r1-20802Solanum lycopersicum (Tomato) 2.510:16038905-16038926-1,9521.32UGGAAACUAGCAUGCAAAAUAUnearMIRNAShortStack
sly-b2.5r1-22026Solanum lycopersicum (Tomato) 2.510:34680208-34680228-2380.16UUUGUGUCUGUGUGUAUUGUUnearMIRNAShortStack
sly-b2.5r1-22028Solanum lycopersicum (Tomato) 2.510:34738903-34738923-2010.14UUUGUGUCUGUGUGUAUUGUUnearMIRNAShortStack
sly-b2.5r1-24514Solanum lycopersicum (Tomato) 2.510:53435761-53435867-8380.57AUGAGAUGGAAUCAAUGGUUGGAUnearMIRNAShortStack
sly-b2.5r1-25100Solanum lycopersicum (Tomato) 2.510:56077055-56077186-1,5761.07UUUGAAACUCGAAAUUUUGGCUCCnearMIRNAShortStack
sly-b2.5r1-25456Solanum lycopersicum (Tomato) 2.510:57190353-57190445+8160.55AGGGGCGGCUCAGACAUAAUGGUGnearMIRNAShortStack
sly-b2.5r1-27775Solanum lycopersicum (Tomato) 2.510:62433748-62433937-2,4481.66GAGGAUUAUGAUAGAGCGGAAAGUnearMIRNAShortStack
sly-b2.5r1-28599Solanum lycopersicum (Tomato) 2.510:64057358-64057381+4360.30CUAAAUUGUAUAAUUCGCUGGCCAnearMIRNAShortStack
sly-b2.5r1-30453Solanum lycopersicum (Tomato) 2.511:2739330-2739401-9690.66GACGGAGUUAGAAUUUUAUAAAUCnearMIRNAShortStack
sly-b2.5r1-33666Solanum lycopersicum (Tomato) 2.511:12709884-12709970+5,1653.50AGAAAUACUGAUCCUAGAGAGAUGnearMIRNAShortStack
sly-b2.5r1-35869Solanum lycopersicum (Tomato) 2.511:34890318-34890421-6400.43AGAAGAUAGUGUCACGUAGGUCAnearMIRNAShortStack
sly-b2.5r1-37177Solanum lycopersicum (Tomato) 2.511:49270558-49270619+6260.42UUUAUUUUUGACUUAAAAGCUACUnearMIRNAShortStack
sly-b2.5r1-39164Solanum lycopersicum (Tomato) 2.511:53906456-53906493+6900.47UAGGAAAAGGGGGCAACUGAUAGUnearMIRNAShortStack
sly-b2.5r1-47297Solanum lycopersicum (Tomato) 2.512:43824233-43824387+4330.29UCUUGGAUUGCUUGAAGACUnearMIRNAShortStack
sly-b2.5r1-48202Solanum lycopersicum (Tomato) 2.512:50691700-50691721-1050.07CAAAACGAUGUUGAAGAACGAnearMIRNAShortStack
sly-b2.5r1-54306Solanum lycopersicum (Tomato) 2.52:28886957-28886991-1880.13AGAGGACGAGCAAUAUGAUAUAGCnearMIRNAShortStack
sly-b2.5r1-55866Solanum lycopersicum (Tomato) 2.52:35320876-35320900+1,8471.25UUGAUAGAAGAUAGAGAGCACmiR156nearMIRNAShortStack
sly-b2.5r1-56525Solanum lycopersicum (Tomato) 2.52:36527912-36527936-620.04UUGGUUUCCUCAAAGAAAAAAGUAnearMIRNAShortStack
sly-b2.5r1-56526Solanum lycopersicum (Tomato) 2.52:36531303-36531359-410.03UUGGUUUCCUCAAAGAAAAAAGUAnearMIRNAShortStack
sly-b2.5r1-64238Solanum lycopersicum (Tomato) 2.53:636188-636218+2,5861.75AAUGACGGGGUCUGAGAUAAUACUnearMIRNAShortStack
sly-b2.5r1-64307Solanum lycopersicum (Tomato) 2.53:731353-731373+4000.27UGCCAAAGAAGAUUUGCCCCGmiR399nearMIRNAShortStack
sly-b2.5r1-69874Solanum lycopersicum (Tomato) 2.53:35742406-35742455+7610.52AAAAUCGGGCCGCGACUGGCACCCnearMIRNAShortStack
sly-b2.5r1-71956Solanum lycopersicum (Tomato) 2.53:54336538-54336571-3010.20AGGCGAAACGGUAUCUUUUGAAUUnearMIRNAShortStack
sly-b2.5r1-72921Solanum lycopersicum (Tomato) 2.53:56838323-56838457+1,9111.29GUUACAAAAAGAAUGAUCGUUUUnearMIRNAShortStack
sly-b2.5r1-73446Solanum lycopersicum (Tomato) 2.53:59023356-59023437-4120.28AUCAGAUGAAUGGUUCGAAAGACAnearMIRNAShortStack
sly-b2.5r1-77091Solanum lycopersicum (Tomato) 2.53:68112477-68112557-2,4891.69AUUGGACUGAAGGGAGCUCCmiR319nearMIRNAShortStack
sly-b2.5r1-79997Solanum lycopersicum (Tomato) 2.54:4093769-4093821-65,94744.63AGAAUCUUGAUGAUGCUGCAGmiR172nearMIRNAShortStack
sly-b2.5r1-80395Solanum lycopersicum (Tomato) 2.54:4874987-4875049-6860.46AUAAACGUCAUUGUAGUUAAACCUnearMIRNAShortStack
sly-b2.5r1-80482Solanum lycopersicum (Tomato) 2.54:5038272-5038302-7700.52AUCAGUUGAGACUAAGCUAAAACUnearMIRNAShortStack
sly-b2.5r1-81586Solanum lycopersicum (Tomato) 2.54:8691281-8691414-5930.40ACAAGAUAGUGCCACGUAGACCUnearMIRNAShortStack
sly-b2.5r1-81685Solanum lycopersicum (Tomato) 2.54:10030862-10031002-3100.21AACCUGUGACGGGCUGUCGUGCCUnearMIRNAShortStack
sly-b2.5r1-81902Solanum lycopersicum (Tomato) 2.54:12406855-12406932-3390.23CAAAGUAGACAUGACCACGGCAnearMIRNAShortStack
sly-b2.5r1-82554Solanum lycopersicum (Tomato) 2.54:21722964-21723214+6,0714.11AGGGGUCGCAUAUGACUUAGGCCUnearMIRNAShortStack
sly-b2.5r1-83413Solanum lycopersicum (Tomato) 2.54:37279587-37279750+1,6091.09ACAAGAUAGUGUUACGUAGGCCAnearMIRNAShortStack
sly-b2.5r1-83453Solanum lycopersicum (Tomato) 2.54:38358109-38358134-1170.08GAACAAGGUAGCUGAAAGAACGGAnearMIRNAShortStack
sly-b2.5r1-83516Solanum lycopersicum (Tomato) 2.54:38770338-38770472-520.04UGAUCUGUUUGUUGCAACAAAnearMIRNAShortStack
sly-b2.5r1-86205Solanum lycopersicum (Tomato) 2.54:53738486-53738520+7280.49UUGAUUAUGGUAGAAUAUUAGnearMIRNAShortStack
sly-b2.5r1-86716Solanum lycopersicum (Tomato) 2.54:55272715-55272848+1,3140.89GAGAAUUAGGACUAUUUUGACUCUnearMIRNAShortStack
sly-b2.5r1-87821Solanum lycopersicum (Tomato) 2.54:59338902-59338927+4000.27GGGAGAUGGUGACGAAGAUGAnearMIRNAShortStack
sly-b2.5r1-88178Solanum lycopersicum (Tomato) 2.54:60061710-60061848-8050.55AUAAAUUGUAUAAUUCGCUGGCCUnearMIRNAShortStack
sly-b2.5r1-92451Solanum lycopersicum (Tomato) 2.55:3113141-3113266-8660.59UUUUGAGCAUUUCUUUACCUnearMIRNAShortStack
sly-b2.5r1-94292Solanum lycopersicum (Tomato) 2.55:7324516-7324557-2330.16ACAAGAUAGUGUUACGUAGGCCAnearMIRNAShortStack
sly-b2.5r1-98170Solanum lycopersicum (Tomato) 2.55:51889256-51889461+1,9381.31AGAAGAUAGUGUCACGUAGGCCAnearMIRNAShortStack
sly-b2.5r1-100164Solanum lycopersicum (Tomato) 2.55:61616946-61617006+6630.45AGAGACGGAGUCAGCAUUUGAAGCnearMIRNAShortStack
sly-b2.5r1-100332Solanum lycopersicum (Tomato) 2.55:61910299-61910468-1,3990.95AGGAUGAGAUAACAAUUACAAAUUnearMIRNAShortStack
sly-b2.5r1-100419Solanum lycopersicum (Tomato) 2.55:62099580-62099631+6120.41AUGACGAGUAAAAGUGAACCGAGAnearMIRNAShortStack
sly-b2.5r1-100883Solanum lycopersicum (Tomato) 2.55:62919693-62919729-1,2560.85UCCGGAUAUAGGUUAGGGGGCnearMIRNAShortStack
sly-b2.5r1-102614Solanum lycopersicum (Tomato) 2.56:654274-654296+5650.38GGAAUCUUGAUGAUGCUGCAUmiR172nearMIRNAShortStack
sly-b2.5r1-103005Solanum lycopersicum (Tomato) 2.56:1372248-1372272-4070.28AAGCUCAGGAGGGAUAGCGCCmiR390nearMIRNAShortStack
sly-b2.5r1-103913Solanum lycopersicum (Tomato) 2.56:3341545-3341673+4400.30AUACAAACAUGUCUGAAUACAUUAnearMIRNAShortStack
sly-b2.5r1-105864Solanum lycopersicum (Tomato) 2.56:25490222-25490252-1400.10AGGAGAGGGAUGUAUAAUGAAAAAnearMIRNAShortStack
sly-b2.5r1-107795Solanum lycopersicum (Tomato) 2.56:34920148-34920228-2830.19AGGAGGACAAUUUCAAUAUGAUUCnearMIRNAShortStack
sly-b2.5r1-114102Solanum lycopersicum (Tomato) 2.56:49339348-49339544-24,56916.63UGAAGCUGCCAGCAUGAUCUAmiR167nearMIRNAShortStack
sly-MIR167a-m1Solanum lycopersicum (Tomato) 2.56:49339356-49339471-24,21816.39UGAAGCUGCCAGCAUGAUCUAmiR167nearMIRNAmiRBase21-BestBlastHit
sly-b2.5r1-114521Solanum lycopersicum (Tomato) 2.57:739631-739831+5,3453.62AUUAACUGAGUGAGCAUCUGAGAAnearMIRNAShortStack
sly-b2.5r1-118046Solanum lycopersicum (Tomato) 2.57:16707188-16707269+3410.23UACUGUACACCUUUGGGCUUAnearMIRNAShortStack
sly-b2.5r1-121161Solanum lycopersicum (Tomato) 2.57:56355276-56355302-1360.09UCAACAUCUUGCUUGGUUUUUAUCnearMIRNAShortStack
sly-b2.5r1-121654Solanum lycopersicum (Tomato) 2.57:57530302-57530326-3470.24AUGUAUUGGCUCGGUGUAAACAACnearMIRNAShortStack
sly-b2.5r1-121787Solanum lycopersicum (Tomato) 2.57:57910732-57910768+1560.11UUUGUGUCUCACACAACAGACnearMIRNAShortStack
sly-b2.5r1-122170Solanum lycopersicum (Tomato) 2.57:58693963-58694082-1,4120.96UCAACUGACCGUAACUUUUGCCUnearMIRNAShortStack
sly-b2.5r1-125813Solanum lycopersicum (Tomato) 2.57:66518134-66518237-9410.64AAGCAUGAGAUUUGAUUUUUGGAUnearMIRNAShortStack
sly-b2.5r1-125999Solanum lycopersicum (Tomato) 2.57:66932294-66932393-8660.59AGGACGAGCACUGGCUAACAGCUGnearMIRNAShortStack
sly-b2.5r1-128107Solanum lycopersicum (Tomato) 2.58:3438254-3438301-2080.14AGGUUUAGGAGCAAAGUACAAUUmiR10535nearMIRNAShortStack
sly-b2.5r1-130664Solanum lycopersicum (Tomato) 2.58:31832153-31832260+1950.13UGAGGCACCAUGAAACUGGCCUnearMIRNAShortStack
sly-b2.5r1-132618Solanum lycopersicum (Tomato) 2.58:51933503-51933523-1530.10UGACAGAAGAGCGUGAGCACmiR156nearMIRNAShortStack
sly-b2.5r1-134569Solanum lycopersicum (Tomato) 2.58:56612252-56612483+39,20526.53ACGAGAGUCAUCUGUGACAGGmiR1919nearMIRNAShortStack
sly-MIR1919a-m1Solanum lycopersicum (Tomato) 2.58:56612335-56612457+39,17626.52ACGAGAGUCAUCUGUGACAGGmiR1919nearMIRNAmiRBase21-BestBlastHit
sly-b2.5r1-134983Solanum lycopersicum (Tomato) 2.58:57599711-57599734+3410.23GGCAGUCGUCUUUAGCUAUAnearMIRNAShortStack
sly-b2.5r1-138845Solanum lycopersicum (Tomato) 2.59:328979-329001+4640.31AAGCAAUGUCAAGUAACUGAUnearMIRNAShortStack
sly-b2.5r1-143776Solanum lycopersicum (Tomato) 2.59:33740559-33740588+6680.45AGAAGAUAGUGUCACGUAGGUCAnearMIRNAShortStack
sly-b2.5r1-145002Solanum lycopersicum (Tomato) 2.59:54066918-54067129-6940.47AGAAGAUAGUGUCAUGUAGGUCAnearMIRNAShortStack
sly-b2.5r1-145801Solanum lycopersicum (Tomato) 2.59:59172714-59172827-9400.64UCGAGAUUUAAUAGAGUUGAACUnearMIRNAShortStack
sly-b2.5r1-146609Solanum lycopersicum (Tomato) 2.59:62056108-62056129+8580.58CUGAAAUAUAAAGUUUGUGUUnearMIRNAShortStack
sly-b2.5r1-147380Solanum lycopersicum (Tomato) 2.59:63978366-63978553+183,932124.49AGUGAAGCUGCCAGCAUGAUCUAmiR167nearMIRNAShortStack
sly-b2.5r1-149751Solanum lycopersicum (Tomato) 2.59:69376518-69376709+1,4150.96GUUAAUAUUUUAUACACUUUGGGCnearMIRNAShortStack
sly-b2.5r1-151171Solanum lycopersicum (Tomato) 2.5SL2.40sc03614:1743-1787-3120.21AACCUGUGACGGGCUGUCGUGCCUnearMIRNAShortStack
sly-b2.5r1-151309Solanum lycopersicum (Tomato) 2.5SL2.40sc03802:1731-1757-1830.12GAGGAAGAUGGAGAACGUGAGAAAnearMIRNAShortStack