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 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACCAAGCCAGGTTCCACTCACACCAGTGTAAAGGGTGTATTTGCTGCTGGCGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAGgttttactctactcctcatgattaatgttcatacatatcaatcaggggagcttctattcccctgtgagtttcagtagaaaccatgaatgttcagtgctag...

Basic information

species Zea mays
transcript GRMZM2G164948_T02
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G164948_T02 (Zea mays), 5'ss of exon 1
lower sequence: EDO97274 (Chlamydomonas reinhardtii), 5'ss of exon 9
ACCAAGCCAGGTTCCACTCACACCAGTGTAAAGGGTGTATTTGCTGCTGGCGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAGgttttactctactcctcatgattaatgttcatacatatcaatcaggggagcttctattcccctgtgagtttcagtagaaacca---tgaatgttcagtgc-tag----------------
                    ||||   ||   ||| || || || || ||||||||||||||||||||||  || ||||||||||| || || ||  | || |  |        ||   | |    |       |          ||  |   |  |     |||      |||    |||||     ||    ||| ||  ||                
--------------------CACCTCCGTGCCGGGCGTGTTCGCGGCGGGCGACGTGCAGGACAAGAAGTGGCGCCAGGCCATTACGGCGGCGGGCACCGGATGCATGGCGGCGCTGGAGgtgcgagggtggggaggggcggggtggtgggggcggtgggggtgtagacaccagccccaaccaaagcaaactagcagagcacaggcggggtgcggcggca
















Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|71757271|gb|DR955208.1|DR955208
EST:     CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAG                         GGTGCATGGCTGCATTGGACGCTGAGCCCTACCTGCAGGAGATCGGTGCCC
genomic: CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAGgttttactct ... gatgttgcagGGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCAC
EST: gi|18176706|gb|BM351639.1|BM351639
EST:     CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAG                         GGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCAC
genomic: CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAGgttttactct ... gatgttgcagGGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCAC
EST: gi|5688765|gb|AI941780.1|AI941780
EST:     CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAG                         GGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCAC
genomic: CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAGgttttactct ... gatgttgcagGGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCAC
EST: gi|71764744|gb|DR962681.1|DR962681
EST:     CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAG                         GGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCAC
genomic: CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAGgttttactct ... gatgttgcagGGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCAC
EST: gi|113606707|gb|DW775888.1|DW775888
EST:     CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAG                         GGTGCATGGCTGCATTGGACGC
genomic: CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAGgttttactct ... gatgttgcagGGTGCATGGCTGCATTGGACGC
EST: gi|18175901|gb|BM351049.1|BM351049
EST:     CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAG                         GGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCAC
genomic: CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAGgttttactct ... gatgttgcagGGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCAC
EST: gi|78104446|gb|DV522864.1|DV522864
EST:     CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAG                         GGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCAC
genomic: CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAGgttttactct ... gatgttgcagGGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCAC
EST: gi|71758998|gb|DR956935.1|DR956935
EST:     CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAG                         GGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCAC
genomic: CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAGgttttactct ... gatgttgcagGGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCAC
EST: gi|74239583|gb|DT647497.1|DT647497
EST:     CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAG                         GGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCAC
genomic: CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAGgttttactct ... gatgttgcagGGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCAC
EST: gi|78074712|gb|DV503146.1|DV503146
EST:     CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAG                         GGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCAC
genomic: CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAGgttttactct ... gatgttgcagGGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCAC
EST: gi|5081074|gb|AI738120.1|AI738120
EST:     CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAG                         GGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCAC
genomic: CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAGgttttactct ... gatgttgcagGGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCAC
EST: gi|22472076|gb|BU036556.1|BU036556
EST:     CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAG                         GGTGCATGGCTGCATTGGACGCTGAACACTACCTGCAGGAGATCGGTGCA
genomic: CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAGgttttactct ... gatgttgcagGGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCA
EST: gi|50323378|gb|CO518504.1|CO518504
EST:     CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAG                         GGTGCATGGCTGCATTGGACGCTGAGCCCTACCTGCAGGAGATCGGTGCCC
genomic: CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAGgttttactct ... gatgttgcagGGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCAC
EST: gi|60350703|gb|DN217676.1|DN217676
EST:     CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAG                         GGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCAC
genomic: CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAGgttttactct ... gatgttgcagGGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCAC
EST: gi|14208332|gb|BG842003.1|BG842003
EST:     CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAG                         GGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCAC
genomic: CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAGgttttactct ... gatgttgcagGGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCAC
EST: gi|74236976|gb|DT644890.1|DT644890
EST:     CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAG                         GGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCAC
genomic: CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAGgttttactct ... gatgttgcagGGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCAC
EST: gi|13389056|gb|BG462535.1|BG462535
EST:     CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAG                         GGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCAC
genomic: CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAGgttttactct ... gatgttgcagGGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCAC
EST: gi|93283431|gb|EB675695.1|EB675695
EST:     CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAG                         GGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCAC
genomic: CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAGgttttactct ... gatgttgcagGGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCAC
EST: gi|37387291|gb|CF630838.1|CF630838
EST:     CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAG                         GGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCAC
genomic: CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAGgttttactct ... gatgttgcagGGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCAC
EST: gi|148950052|gb|EC895584.2|EC895584
EST:     CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAG                         GGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCAC
genomic: CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAGgttttactct ... gatgttgcagGGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCAC
EST: gi|94477383|gb|EB706341.1|EB706341
EST:     CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAG                         GGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCAC
genomic: CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAGgttttactct ... gatgttgcagGGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCAC
EST: gi|89763820|gb|DY690855.1|DY690855
EST:     CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAG                         GGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCAC
genomic: CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAGgttttactct ... gatgttgcagGGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCAC
EST: gi|87157286|gb|DY402075.1|DY402075
EST:     CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAG                         GGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCAC
genomic: CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAGgttttactct ... gatgttgcagGGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCAC
EST: gi|110543482|gb|EE046217.1|EE046217
EST:     CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAG                         GGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCCC
genomic: CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAGgttttactct ... gatgttgcagGGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCAC
EST: gi|89250385|gb|DY622171.1|DY622171
EST:     CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAG                         GGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCAC
genomic: CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAGgttttactct ... gatgttgcagGGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCAC
EST: gi|78115787|gb|DV534175.1|DV534175
EST:     CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAG                         GGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCAC
genomic: CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAGgttttactct ... gatgttgcagGGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCAC
EST: gi|60349731|gb|DN216704.1|DN216704
EST:     CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAG                         GGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCAC
genomic: CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAGgttttactct ... gatgttgcagGGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCAC
EST: gi|78024644|gb|DV493031.1|DV493031
EST:     CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAG                         GGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCAC
genomic: CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAGgttttactct ... gatgttgcagGGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCAC
EST: gi|94477748|gb|EB706706.1|EB706706
EST:     CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAG                         GGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCAC
genomic: CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAGgttttactct ... gatgttgcagGGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCAC
EST: gi|86471315|gb|DY237685.1|DY237685
EST:     CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAG                         GGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCAC
genomic: CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAGgttttactct ... gatgttgcagGGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCAC
EST: gi|60355574|gb|DN222547.1|DN222547
EST:     CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAG                         GGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCAC
genomic: CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAGgttttactct ... gatgttgcagGGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCAC
EST: gi|93014752|gb|EB640272.1|EB640272
EST:     CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAG                         GGTGCATGGCTGCATTGGACGTTGAGCACTACCTGCAGGAGATCGGTGCAC
genomic: CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAGgttttactct ... gatgttgcagGGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCAC
EST: gi|76283799|gb|DV023367.1|DV023367
EST:     CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAG                         GGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCAC
genomic: CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAGgttttactct ... gatgttgcagGGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCAC
EST: gi|71303950|gb|DR788097.1|DR788097
EST:     CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAG                         GGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCAC
genomic: CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAGgttttactct ... gatgttgcagGGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCAC
EST: gi|211514517|gb|FL430906.1|FL430906
EST:     CGACGTGCAGGACAAGAAGTACCGTCAGGCCAYTACTGCCGCTGGATCAG                         GGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCAC
genomic: CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAGgttttactct ... gatgttgcagGGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCAC
EST: gi|71428609|gb|DR809659.1|DR809659
EST:     CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAG                         GGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCAC
genomic: CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAGgttttactct ... gatgttgcagGGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCAC
EST: gi|74241806|gb|DT649720.1|DT649720
EST:     CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAG                         GGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCAC
genomic: CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAGgttttactct ... gatgttgcagGGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCAC
EST: gi|71764184|gb|DR962121.1|DR962121
EST:     CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAG                         GGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCAC
genomic: CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAGgttttactct ... gatgttgcagGGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCAC
EST: gi|50337931|gb|CO533057.1|CO533057
EST:     CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAG                         GGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCAC
genomic: CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAGgttttactct ... gatgttgcagGGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCAC
EST: gi|88757961|gb|DY542102.1|DY542102
EST:     CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAG                         GGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCAC
genomic: CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAGgttttactct ... gatgttgcagGGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCAC
EST: gi|91868589|gb|EB400076.1|EB400076
EST:     CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAG                         GGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCAC
genomic: CGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAGgttttactct ... gatgttgcagGGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCAC

RNA-Seq data


 ATGC   Supported by RNA-Seq exonic block that spans over the splice site

 atgs   Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.


Found data for 4 RNA-Seq libraries.


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 221

ACCAAGCCAGGTTCCACTCACACCAGTGTAAAGGGTGTATTTGCTGCTGGCGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAGgttttactct ... gatgttgcagGGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCACAGGAGGGAAAGTCTGATTGACTATATTTAGGTGTAGCAACCAGCAATCC


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 131

ACCAAGCCAGGTTCCACTCACACCAGTGTAAAGGGTGTATTTGCTGCTGGCGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAGgttttactct ... gatgttgcagGGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCACAGGAGGGAAAGTCTGATTGACTATATTTAGGTGTAGCAACCAGCAATCC


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 139

ACCAAGCCAGGTTCCACTCACACCAGTGTAAAGGGTGTATTTGCTGCTGGCGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAGgttttactct ... gatgttgcagGGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCACAGGAGGGAAAGTCTGATTGACTATATTTAGGTGTAGCAACCAGCAATCC


Block sizes: 48 (upstream exon), 48 (downstream exon)
Score: 89

ACCAAGCCAGGTTCCACTCACACCAGTGTAAAGGGTGTATTTGCTGCTGGCGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAGgttttactct ... gatgttgcagGGTGCATGGCTGCATTGGACGCTGAGCACTACCTGCAGGAGATCGGTGCACAGGAGGGAAAGTCTGATTGACTATATTTAGGTGTAGCAACCAGCAATCC


Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ACCAAGCCAGGTTCCACTCACACCAGTGTAAAGGGTGTATTTGCTGCTGGCGACGTGCAGGACAAGAAGTACCGTCAGGCCATTACTGCCGCTGGATCAGgttttactctactcctcatgattaatgttcatacatatcaatcaggggagcttctattcccctgtgagtttcagtagaaaccatgaatgttcagtgctag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA