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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaccagcgatcgatacagcctgactgactgcacaccaaatctcttgcctttcctgccgccgcatcccaattgggcttgatcagctaacctaaggggagcaaggccccgtgctctgctgatgcagGTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGCCCGCGCCAGCTCAACGGCATCTCCGACAGAGTG

Basic information

species Zea mays
transcript GRMZM2G042818_T01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G042818_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os01g54860.1 (Oryza sativa), 3'ss of exon 1
gtaccagcgatcgatacagcctgactgactgcacaccaaatctcttgcctttcctgccgccgcatcccaattgggcttgatcagctaacctaaggggagcaaggccccgtgctctgctgatgcagGTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGCCCGCGCCAGCTCAACGGCATCTCCGACAGAGTG
              ||| |     |     ||  || |   |  ||  |||  ||   |  | ||        ||  || | ||  |       |   ||  ||| ||||    |  |  |||||||||| ||||||||||||  ||| | |||||||||||| |  |||||||| ||||||||||| |||| ||||||||| ||||||
-------------gtaccgatcagccccacgcgaacgaggccattt-tcttctctcttgtagtatgt------ggtgtggtgag--agt---gagaacgcgcggcgccgt---ttctttgtgcagGTGGTGCTCGGGCAGGAGACCGGCGGCGCGAGGGTGGCGATCCTCAACCGGCCGCGCCAGCTGAACGTCATCTCCGATAGAGTG
















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|74240480|gb|DT648394.1|DT648394
EST:     ACCTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAG                         GTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGC
genomic: ACCTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAGgtaccagcga ... gctgatgcagGTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGC
EST: gi|211380227|gb|FL081829.1|FL081829
EST:     ACCTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAG                         GTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGC
genomic: ACCTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAGgtaccagcga ... gctgatgcagGTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGC
EST: gi|101390789|gb|EB817329.1|EB817329
EST:     ACCTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAG                         GTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGC
genomic: ACCTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAGgtaccagcga ... gctgatgcagGTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGC
EST: gi|71448792|gb|DR829842.1|DR829842
EST:     ACCTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAG                         GTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGC
genomic: ACCTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAGgtaccagcga ... gctgatgcagGTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGC
EST: gi|148991517|gb|EE033036.2|EE033036
EST:     ACCTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAG                         GTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGC
genomic: ACCTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAGgtaccagcga ... gctgatgcagGTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGC
EST: gi|211380223|gb|FL081825.1|FL081825
EST:     ACCTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAG                         GTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGC
genomic: ACCTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAGgtaccagcga ... gctgatgcagGTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGC
EST: gi|29544420|gb|CB604800.1|CB604800
EST:     ACCTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAG                         GTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGC
genomic: ACCTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAGgtaccagcga ... gctgatgcagGTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGC
EST: gi|78109535|gb|DV527951.1|DV527951
EST:     ACCTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAG                         GTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGC
genomic: ACCTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAGgtaccagcga ... gctgatgcagGTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGC
EST: gi|211252500|gb|FL081823.1|FL081823
EST:     ACCTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAG                         GTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGC
genomic: ACCTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAGgtaccagcga ... gctgatgcagGTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGC
EST: gi|211380230|gb|FL081832.1|FL081832
EST:     ACCTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAG                         GTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGC
genomic: ACCTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAGgtaccagcga ... gctgatgcagGTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGC
EST: gi|211380232|gb|FL081834.1|FL081834
EST:     A-CTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAG                         GTGGTCCTCGGGCAGGAGGTCGGGGCCGCGA-GGTGGCCACTCTCAACCGC
genomic: ACCTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAGgtaccagcga ... gctgatgcagGTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGC
EST: gi|211380228|gb|FL081830.1|FL081830
EST:     AAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAG                         GTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGC
genomic: AAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAGgtaccagcga ... gctgatgcagGTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGC
EST: gi|211380226|gb|FL081828.1|FL081828
EST:     A-CTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAG                         GTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGC
genomic: ACCTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAGgtaccagcga ... gctgatgcagGTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGC
EST: gi|211252494|gb|FL081817.1|FL081817
EST:     ACCTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAG                         GTGGTCCTCARGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCG
genomic: ACCTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAGgtaccagcga ... gctgatgcagGTGGTCCTCG-GGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCG
EST: gi|211380225|gb|FL081827.1|FL081827
EST:     A-CTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAG                         GTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGC
genomic: ACCTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAGgtaccagcga ... gctgatgcagGTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGC
EST: gi|211380234|gb|FL081836.1|FL081836
EST:     ACCTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAG                         GTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGC
genomic: ACCTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAGgtaccagcga ... gctgatgcagGTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGC
EST: gi|211380229|gb|FL081831.1|FL081831
EST:     ACCTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAG                         GTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGC
genomic: ACCTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAGgtaccagcga ... gctgatgcagGTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGC
EST: gi|149000045|gb|EE037146.2|EE037146
EST:     ACCTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAG                         GTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGC
genomic: ACCTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAGgtaccagcga ... gctgatgcagGTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGC
EST: gi|76292518|gb|DV032086.1|DV032086
EST:     ACCTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAG                         GTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGC
genomic: ACCTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAGgtaccagcga ... gctgatgcagGTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGC
EST: gi|74239820|gb|DT647734.1|DT647734
EST:     ACCTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAG                         GTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGC
genomic: ACCTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAGgtaccagcga ... gctgatgcagGTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGC
EST: gi|71304196|gb|DR788218.1|DR788218
EST:     ACCTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAG                         GTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGC
genomic: ACCTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAGgtaccagcga ... gctgatgcagGTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGC
EST: gi|148930999|gb|EC873545.2|EC873545
EST:     ACCTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAG                         GTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGC
genomic: ACCTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAGgtaccagcga ... gctgatgcagGTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGC
EST: gi|101384069|gb|EB814089.1|EB814089
EST:     CCTCCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAG                         GTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGC
genomic: CCT-CAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAGgtaccagcga ... gctgatgcagGTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGC
EST: gi|211252496|gb|FL081819.1|FL081819
EST:     A-CTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAG                         GTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGC
genomic: ACCTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAGgtaccagcga ... gctgatgcagGTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGC
EST: gi|211252492|gb|FL081815.1|FL081815
EST:     A-CTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAG                         GTGGTCCTCGGGCAGGAGGTCGGGGCCGCGA-GGTGGCCACTCTCAACCGC
genomic: ACCTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAGgtaccagcga ... gctgatgcagGTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGC
EST: gi|71429840|gb|DR810890.1|DR810890
EST:     ACCTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAG                         GTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGC
genomic: ACCTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAGgtaccagcga ... gctgatgcagGTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGC
EST: gi|22819358|gb|BU499448.1|BU499448
EST:     ACCTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAG                         GTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGC
genomic: ACCTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAGgtaccagcga ... gctgatgcagGTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGC
EST: gi|93012152|gb|EB637672.1|EB637672
EST:     ACCTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAG                         GTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGC
genomic: ACCTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAGgtaccagcga ... gctgatgcagGTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGC
EST: gi|211380236|gb|FL081838.1|FL081838
EST:     ACCTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAG                         GTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGC
genomic: ACCTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAGgtaccagcga ... gctgatgcagGTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGC
EST: gi|91056953|gb|EB167371.1|EB167371
EST:     ACCTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAG                         GTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGC
genomic: ACCTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAGgtaccagcga ... gctgatgcagGTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGC
EST: gi|211252498|gb|FL081821.1|FL081821
EST:     A-CTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAG                         GTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGC
genomic: ACCTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAGgtaccagcga ... gctgatgcagGTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGC
EST: gi|211380231|gb|FL081833.1|FL081833
EST:     ACCTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAG                         GTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGC
genomic: ACCTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAGgtaccagcga ... gctgatgcagGTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGC
EST: gi|211252499|gb|FL081822.1|FL081822
EST:     A-CTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAG                         GTGGTCCTCGGGCAGGAGGTCGGGGCCGCGA-GGTGGCCACTCTCAACCGC
genomic: ACCTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAGgtaccagcga ... gctgatgcagGTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGC
EST: gi|211380224|gb|FL081826.1|FL081826
EST:     A-CTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAG                         GTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGC
genomic: ACCTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAGgtaccagcga ... gctgatgcagGTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGC
EST: gi|211380235|gb|FL081837.1|FL081837
EST:     A-CTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAG                         GTGGTCCTCGGGCAGGAGGTCGGGGCCGCGA-GGTGGCCACTCTCAACCGC
genomic: ACCTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAGgtaccagcga ... gctgatgcagGTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGC
EST: gi|149089063|gb|EE178226.2|EE178226
EST:     ACCTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAG                         GTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGC
genomic: ACCTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAGgtaccagcga ... gctgatgcagGTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGC
EST: gi|148959115|gb|EE010592.2|EE010592
EST:     ACCTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAG                         GTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGC
genomic: ACCTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAGgtaccagcga ... gctgatgcagGTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGC
EST: gi|71448491|gb|DR829541.1|DR829541
EST:     ACCTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAG                         GTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGC
genomic: ACCTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAGgtaccagcga ... gctgatgcagGTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGC
EST: gi|29576708|gb|CB616820.1|CB616820
EST:     ACCTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAG                         G-GGTCCTCGGGCAGGAGGTCGGGGTCGCGAGGGTGGCCACTCTCAACCGC
genomic: ACCTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAGgtaccagcga ... gctgatgcagGTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGC
EST: gi|74238393|gb|DT646307.1|DT646307
EST:     ACCTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAG                         GTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGC
genomic: ACCTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAGgtaccagcga ... gctgatgcagGTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGC
EST: gi|71447954|gb|DR829004.1|DR829004
EST:     ACCTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAG                         GTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGC
genomic: ACCTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAGgtaccagcga ... gctgatgcagGTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGC
EST: gi|22472580|gb|BU037060.1|BU037060
EST:     ACCTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAG                         GTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGC
genomic: ACCTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAGgtaccagcga ... gctgatgcagGTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGC

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), 48 (downstream exon)
Score: 42

TTCACAGCTTCGCACCTCGCGTCACAACACCAAGACGCACGTAGGAGGGAACCTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAGgtaccagcga ... gctgatgcagGTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGCCCGCGCCAGCTCAACGGCATCTCCGACAGAGTG


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 150

TTCACAGCTTCGCACCTCGCGTCACAACACCAAGACGCACGTAGGAGGGAACCTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAGgtaccagcga ... gctgatgcagGTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGCCCGCGCCAGCTCAACGGCATCTCCGACAGAGTG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 162

TTCACAGCTTCGCACCTCGCGTCACAACACCAAGACGCACGTAGGAGGGAACCTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAGgtaccagcga ... gctgatgcagGTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGCCCGCGCCAGCTCAACGGCATCTCCGACAGAGTG


Block sizes: 47 (upstream exon), 48 (downstream exon)
Score: 106

TTCACAGCTTCGCACCTCGCGTCACAACACCAAGACGCACGTAGGAGGGAACCTCAAGCTTCAGTCGTCCATGGCTCAGCAGCAAACAAATCCTGAAGAGgtaccagcga ... gctgatgcagGTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGCCCGCGCCAGCTCAACGGCATCTCCGACAGAGTG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgggcttgatcagctaacctaaggggagcaaggccccgtgctctgctgatgcagGTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGCCCGCGCCAGCTCAACGGCATCTCCGACAGAGTG
                                         ctctgct  CT-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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaccagcgatcgatacagcctgactgactgcacaccaaatctcttgcctttcctgccgccgcatcccaattgggcttgatcagctaacctaaggggagcaaggccccgtgctctgctgatgcagGTGGTCCTCGGGCAGGAGGTCGGGGCCGCGAGGGTGGCCACTCTCAACCGCCCGCGCCAGCTCAACGGCATCTCCGACAGAGTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTCA