Skip to another splice site:
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 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgcgccttttcctttcccttgtggtgtgaagtgggtatgtgttgtttttgtgggtttgattccaagaaaataggagttcttgatggggttttcactctgagttagtttcaattcgacgcagAGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGATGGCTG

Basic information

species Zea mays
transcript GRMZM2G139533_T01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G139533_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os11g11050.1 (Oryza sativa), 3'ss of exon 2
gtgcgccttttcctttcccttgtggtgtgaagtgggtatgtgttgtttttgtgggtttgatt--ccaagaaaataggagttcttgatggggttttcactctgagttagtttcaattcgacgcagAGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGATGGCTG
                        ||  |   |   | | |  |  |||| ||   || | |    | |     | ||||||||||| |||||||   | |       |  |   | |  |||||||||||| || |||||| |||| ||||||||||||||| | |||| |||||| ||
------------------------gttcgtttttattctcttcttgttttttgttctttactggtgaggtggggatgagttcttgattgggtttttttttt-------tcccttgtgggtgcagAGGAAGCTCCCACTCGAGGTGGACTACATCGACGTCAAGTGCTCCGGCGATGGATG
















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|50324232|gb|CO519358.1|CO519358
EST:     CCCTGCAGTCCATCGTTTACAGCCGGGGGTCGCTCCGCCTCCTCGATCAG                         AGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
genomic: CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAGgtgcgccttt ... ttcgacgcagAGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
EST: gi|32910772|gb|CF015584.1|CF015584
EST:     CGCTGCAGTCCATCGTTTACAGCCGTGGGTCACTCCGCCTCCTCGACCAG                         AGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
genomic: CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAGgtgcgccttt ... ttcgacgcagAGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
EST: gi|211134391|gb|FL235008.1|FL235008
EST:     CGCTGCAGTCCATCGTTTACAGCCGTGGGTCACTCCGCCTCCTCGATCAG                         AGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGYTCCGCCGAT
genomic: CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAGgtgcgccttt ... ttcgacgcagAGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
EST: gi|211541114|gb|FL234981.1|FL234981
EST:     CGCTGCAGTCCATCGTTTACAGCCGTGGATCACTCCGCCTCCTCGATCAG                         AGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
genomic: CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAGgtgcgccttt ... ttcgacgcagAGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
EST: gi|89250566|gb|DY622352.1|DY622352
EST:     CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAG                         AGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
genomic: CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAGgtgcgccttt ... ttcgacgcagAGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
EST: gi|211134383|gb|FL235000.1|FL235000
EST:     CGCTGCAGTCCATCGTTTACAGCCGTGGGTCACTCCGCCTCCTCGATCAG                         AGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
genomic: CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAGgtgcgccttt ... ttcgacgcagAGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
EST: gi|211134386|gb|FL235003.1|FL235003
EST:     CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAG                         AGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
genomic: CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAGgtgcgccttt ... ttcgacgcagAGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
EST: gi|78084278|gb|DV512671.1|DV512671
EST:     CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAG                         AGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
genomic: CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAGgtgcgccttt ... ttcgacgcagAGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
EST: gi|211133443|gb|FL234988.1|FL234988
EST:     CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAG                         AGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
genomic: CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAGgtgcgccttt ... ttcgacgcagAGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
EST: gi|78116800|gb|DV535187.1|DV535187
EST:     CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAG                         AGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
genomic: CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAGgtgcgccttt ... ttcgacgcagAGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
EST: gi|211133448|gb|FL234993.1|FL234993
EST:     CGCTGCAGTCCATCGTTTACAGCCGTGGGTCACTCCGCCTCCTCGATCAG                         AGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
genomic: CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAGgtgcgccttt ... ttcgacgcagAGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
EST: gi|211133449|gb|FL234994.1|FL234994
EST:     CGCTGCAGTCCATCGTTTACAGCCGTGGGTCACTCCGCCTCCTCGATCAG                         AGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
genomic: CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAGgtgcgccttt ... ttcgacgcagAGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
EST: gi|88752183|gb|DY536324.1|DY536324
EST:     CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAG                         AGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
genomic: CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAGgtgcgccttt ... ttcgacgcagAGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
EST: gi|74244684|gb|DT652598.1|DT652598
EST:     CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAG                         AGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
genomic: CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAGgtgcgccttt ... ttcgacgcagAGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
EST: gi|211134381|gb|FL234998.1|FL234998
EST:     CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAG                         AGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
genomic: CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAGgtgcgccttt ... ttcgacgcagAGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
EST: gi|71435544|gb|DR816594.1|DR816594
EST:     CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAG                         AGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
genomic: CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAGgtgcgccttt ... ttcgacgcagAGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
EST: gi|211133451|gb|FL234996.1|FL234996
EST:     CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAG                         AGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
genomic: CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAGgtgcgccttt ... ttcgacgcagAGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
EST: gi|211134389|gb|FL235006.1|FL235006
EST:     CGCTGCAGTCCATCGTTTACAGCCGTGGGTCACTCCGCCTCCTCGATCAG                         AGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
genomic: CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAGgtgcgccttt ... ttcgacgcagAGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
EST: gi|78091338|gb|DV519712.1|DV519712
EST:     CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAG                         AGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
genomic: CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAGgtgcgccttt ... ttcgacgcagAGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
EST: gi|211133445|gb|FL234990.1|FL234990
EST:     CGCTGCAGTCCATCGTTTACAGCCGTGGGTCACTCCGCCTCCTCGATCAG                         AGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
genomic: CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAGgtgcgccttt ... ttcgacgcagAGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
EST: gi|76921923|gb|DV168769.1|DV168769
EST:     CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAG                         AGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
genomic: CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAGgtgcgccttt ... ttcgacgcagAGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
EST: gi|76285911|gb|DV025479.1|DV025479
EST:     CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAG                         AGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
genomic: CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAGgtgcgccttt ... ttcgacgcagAGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
EST: gi|6964700|gb|AW433393.1|AW433393
EST:     CGCTGCAGTCCATCGTTTACAGCCGTGGGTCACTCCGCCTCCTCGATCAG                         AGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
genomic: CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAGgtgcgccttt ... ttcgacgcagAGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
EST: gi|211133446|gb|FL234991.1|FL234991
EST:     CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAG                         AGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
genomic: CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAGgtgcgccttt ... ttcgacgcagAGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
EST: gi|211134388|gb|FL235005.1|FL235005
EST:     CGCTGCAGTCCATCGTTTACAGCCGTGGGTCACTCCGCCTCCTCGATCAG                         AGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
genomic: CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAGgtgcgccttt ... ttcgacgcagAGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
EST: gi|211133440|gb|FL234985.1|FL234985
EST:     CGCTGCAGTCCATCGTTTACAGCCGTGGGTCACTCCGCCTCCTCGATCAG                         AGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
genomic: CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAGgtgcgccttt ... ttcgacgcagAGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
EST: gi|213191131|gb|FM184996.1|FM184996
EST:     CGCTGCAGTCCATCGTTTACAGCCGTGGGTCACTCCGCCTCCTCGATCAG                         AGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
genomic: CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAGgtgcgccttt ... ttcgacgcagAGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
EST: gi|88756113|gb|DY540254.1|DY540254
EST:     CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAG                         AGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
genomic: CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAGgtgcgccttt ... ttcgacgcagAGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
EST: gi|74242198|gb|DT650112.1|DT650112
EST:     CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAG                         AGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
genomic: CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAGgtgcgccttt ... ttcgacgcagAGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
EST: gi|60347352|gb|DN214325.1|DN214325
EST:     CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAG                         AGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
genomic: CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAGgtgcgccttt ... ttcgacgcagAGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
EST: gi|12046458|gb|BF728597.1|BF728597
EST:     CGCTGCAGTCCATCGTTTACAGCCGTGGGTCACTCCGCCTCCTCGATCAG                         AGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
genomic: CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAGgtgcgccttt ... ttcgacgcagAGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
EST: gi|211133442|gb|FL234987.1|FL234987
EST:     CGCTGCAGTCCATCGTTTACAGCCGTGGGTCACTCCGCCTCCTCGATCAG                         AGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
genomic: CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAGgtgcgccttt ... ttcgacgcagAGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
EST: gi|211134380|gb|FL234997.1|FL234997
EST:     CGCTGCAGTCCATCGTTTACAGCCGTGGGTCACTCCGCCTCCTCGATCAG                         AGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
genomic: CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAGgtgcgccttt ... ttcgacgcagAGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
EST: gi|71767215|gb|DR965152.1|DR965152
EST:     CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAG                         AGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
genomic: CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAGgtgcgccttt ... ttcgacgcagAGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
EST: gi|211133438|gb|FL234983.1|FL234983
EST:     CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAG                         AGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
genomic: CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAGgtgcgccttt ... ttcgacgcagAGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
EST: gi|211134390|gb|FL235007.1|FL235007
EST:     CGCTGCAGTCCATCGTTTACAGCCGTGGGTCACTCCGCCTCCTCGATCAG                         AGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
genomic: CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAGgtgcgccttt ... ttcgacgcagAGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
EST: gi|211134387|gb|FL235004.1|FL235004
EST:     CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAG                         AGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
genomic: CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAGgtgcgccttt ... ttcgacgcagAGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
EST: gi|78180978|gb|DV551351.1|DV551351
EST:     CGCTGCAGTCCATCGTTTACAGCCGTGGGTCACTCCGCCTCCTCGATCAG                         AGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
genomic: CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAGgtgcgccttt ... ttcgacgcagAGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
EST: gi|74233420|gb|DT641334.1|DT641334
EST:     CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAG                         AGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
genomic: CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAGgtgcgccttt ... ttcgacgcagAGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
EST: gi|89758430|gb|DY687612.1|DY687612
EST:     CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAG                         AGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
genomic: CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAGgtgcgccttt ... ttcgacgcagAGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
EST: gi|211133447|gb|FL234992.1|FL234992
EST:     CGCTGCAGTCCATCGTTTACAGCCGTGGGTCACTCCGCCTCCTCGATCAG                         AGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
genomic: CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAGgtgcgccttt ... ttcgacgcagAGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
EST: gi|211133439|gb|FL234984.1|FL234984
EST:     CGCTGCAGTCCATCGTTTACAGCCGTGGGTCACTCCGCCTCCTCGATCAG                         AGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
genomic: CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAGgtgcgccttt ... ttcgacgcagAGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
EST: gi|32855368|gb|CD995049.1|CD995049
EST:     CGCTGCAGTCCATCGTTTACAGCCGTGGGTCACTCCGCCTCCTCGATCAG                         AGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
genomic: CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAGgtgcgccttt ... ttcgacgcagAGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
EST: gi|88756070|gb|DY540211.1|DY540211
EST:     CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAG                         AGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
genomic: CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAGgtgcgccttt ... ttcgacgcagAGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
EST: gi|71445095|gb|DR826145.1|DR826145
EST:     CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAG                         AGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
genomic: CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAGgtgcgccttt ... ttcgacgcagAGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
EST: gi|211133450|gb|FL234995.1|FL234995
EST:     CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAG                         AGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
genomic: CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAGgtgcgccttt ... ttcgacgcagAGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
EST: gi|211133444|gb|FL234989.1|FL234989
EST:     CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAG                         AGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
genomic: CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAGgtgcgccttt ... ttcgacgcagAGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
EST: gi|32866511|gb|CF006193.1|CF006193
EST:     CGCTGCAGTCCATCGTTTACAGCCGTGGGTCACTCCGCCTCCTCGATCAG                         AGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
genomic: CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAGgtgcgccttt ... ttcgacgcagAGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
EST: gi|71427098|gb|DR808148.1|DR808148
EST:     CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAG                         AGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
genomic: CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAGgtgcgccttt ... ttcgacgcagAGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
EST: gi|32856195|gb|CD995876.1|CD995876
EST:     CGCTGCAGTCCATCGTTTACAGCCGTGGGTCACTCCGCCTCCTCGATCAG                         AGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
genomic: CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAGgtgcgccttt ... ttcgacgcagAGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
EST: gi|89252134|gb|DY623920.1|DY623920
EST:     CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAG                         AGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
genomic: CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAGgtgcgccttt ... ttcgacgcagAGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
EST: gi|211134392|gb|FL235009.1|FL235009
EST:     CGCTGCAGTCCATCGTTTACAGCCGTGGGTCACTCCGCCTCCTCGATCAG                         AGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT
genomic: CGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAGgtgcgccttt ... ttcgacgcagAGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGAT

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: 112

TCCAGGCGGTTCTCTTCCCAGAAGCCAGCCCAGAATGGCGGCATCCGACGCGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAGgtgcgccttt ... ttcgacgcagAGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGATGGCTG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 154

TCCAGGCGGTTCTCTTCCCAGAAGCCAGCCCAGAATGGCGGCATCCGACGCGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAGgtgcgccttt ... ttcgacgcagAGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGATGGCTG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 296

TCCAGGCGGTTCTCTTCCCAGAAGCCAGCCCAGAATGGCGGCATCCGACGCGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAGgtgcgccttt ... ttcgacgcagAGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGATGGCTG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 110

TCCAGGCGGTTCTCTTCCCAGAAGCCAGCCCAGAATGGCGGCATCCGACGCGCTGCAGTCCATCGTTTACAGCCGTGGGTCGCTCCGCCTCCTCGATCAGgtgcgccttt ... ttcgacgcagAGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGATGGCTG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaaataggagttcttgatggggttttcactctgagttagtttcaattcgacgcagAGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGATGGCTG
           tcttgat  putative branch site (score: 110)
                                       tttcaatt  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgcgccttttcctttcccttgtggtgtgaagtgggtatgtgttgtttttgtgggtttgattccaagaaaataggagttcttgatggggttttcactctgagttagtttcaattcgacgcagAGGAAGCTGCCGCTCGAGATGGAGTACATCGACGTCAAGAGTTCCGCCGATGGCTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GATGGA