Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   		12  
 5'  3'   		13  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattaactgctgattgtcgtaaacttagtcagaattcttgttgctatcctgagatatttattcagttgtgtacagtacagttgtttgcatctaccaaactgccactgtacacacagaaaactgtcataattctagccattgatcctgttatcatcctcaaagagtgaacagtttttttcttgttgcagGTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTGCAGGTCCTATCGGCCTCATGCAAGCATGCCTTGATGTAGCTGTTCCTTA

Basic information

species Oryza sativa
transcript LOC_Os05g03480.4
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g03480.4 (Oryza sativa), 3'ss of exon 9
lower sequence: GRMZM2G052630_T02 (Zea mays), 3'ss of exon 8
gtattaactgctgattgtcgtaaacttagtcagaattcttgttgctatcctgagatatttattcagttgtgtacagtacagttgtttgcatctaccaaactgccactgtacacacagaaaactgtcataattctagccattgatcctgttatcatcctcaaagagtgaacagtttttttcttgttgcagGTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTGCAGGTCCTATCGGCCTCATGCAAGCATGCCTTGATGTAGCTGTTCCTTA
                                                                              ||| |||||  ||    | |  | | |     | || | ||||||   |  |||     | || ||    |  ||| | |  |    |   |     || |||||| ||||||||||||||||||||||||||||||||||| ||||| ||||| |||||||| || ||||| ||||| ||||| |||||||||||||| |   |||| ||
-----------------------------------------------------------------------------gcagatgttt--attccacgattttcta--aaccccatataaaactagaaagattt----ctttaattagatggtcacctttgatctctatgc----cttctcttgtggcagGTGTTTATGTCATGATGTCAGGGCTTGATCTGGAAAGGCTTGTATTAGCTGCGGGCCCTATTGGCCTTATGCAGGCATGCCTTGATGTTGTACTTCCATA

upper sequence: LOC_Os05g03480.4 (Oryza sativa), 3'ss of exon 9
lower sequence: GRMZM2G381051_T01 (Zea mays), 3'ss of exon 8
gtattaactgctgattgtcgtaaacttagtcagaattcttgttgctatcctgagatatttattcagttgtgtacagtacagttgtttgcatctaccaaactgccactgtacacacagaaaactgtcataattctagccattgatcctgttatcatcctcaaagagtgaacagtttttttcttgttgcagGTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTGCAGGTCCTATCGGCCTCATGCAAGCATGCCTTGATGTAGCTGTTCCTTA
                                                                              ||| ||||  |||      |  | | |     || | | ||    |  | | ||||     || ||      |||| | |  |    |   |     ||||||||| ||||||||||||||||||||||||||||||||||| ||||| ||||| |||||||| || ||||| ||||| ||||| |||||||||||||| |   |||| ||
-----------------------------------------------------------------------------gcagatgtt--cattccatgattttctaaaccccatata-aagctagaaacagttct-----ttaattggaggatcacctttgatctctatgc----cttttcttgtggcagGTGTTTATGTCATGATGTCAGGGCTTGATCTGGAAAGGCTTGTATTAGCTGCGGGCCCTATTGGCCTTATGCAGGCATGCCTTGATGTTGTACTTCCATA

upper sequence: LOC_Os05g03480.4 (Oryza sativa), 3'ss of exon 9
lower sequence: GLYMA12G07570.1 (Glycine max), 3'ss of exon 10
gtattaactgctgattgtcgtaaacttagtcagaattcttgttgctatcctgagatatttattcagttgtgtacagtacagttgtttgcatctaccaaactgccactgtacacacagaaaactgtcataattctagccattgatcctgttatcatcctcaaagagtgaacagtttttttcttgttgcagGTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTGCAGGTCCTATCGGCCTCATGCAAGCATGCCTTGATGTAGCTGTTCCTTA
                                                                                  | | |   | | |||  |    |||| | | | ||||     |  |  || | |       ||  ||  ||||          | | || || || | ||||| |||| || |||||||||||||| ||||| ||||| || |||||||| || || || |||||| | ||  | ||||| ||||| |||||||| |   |||||||
-------------------------------------------------------------------------------tcctttctcttttttccatgcaaatactg-ataaagagaaggacattttg-ttattgttgcatgtcaagt-gtcattt-------attaccacttattcttttgtttcagGAGTCTATGTCATGATGTCTGGGCTGGATCTGGAGAGACTTGTTTTGGCAGCTGGTCCTCTTGGTATTATGCAGGCATGTCTTGATGTTGTCCTTCCTTA

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|29661230|gb|CB657505.1|CB657505
EST:     CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAG                         GTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
genomic: CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAGgtattaactg ... cttgttgcagGTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
EST: gi|29665694|gb|CB661969.1|CB661969
EST:     GAGAATTGTTTTGTGCCCCCATGAAA-CGTTCTCGGGGAAGAAGGGAAAG                         GTGTTTATGTCATGATGT
genomic: GAGAATTGTTTTGTGCCCC-ATGAAAACGTTCTCGGGGAAGAAGGGAAAGgtattaactg ... cttgttgcagGTGTTTATGTCATGATGT
EST: gi|29680250|gb|CB676525.1|CB676525
EST:     CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAG                         GTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
genomic: CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAGgtattaactg ... cttgttgcagGTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
EST: gi|29661037|gb|CB657312.1|CB657312
EST:     CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAA-G                         GTGTTTATGTCATGAT
genomic: CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAGgtattaactg ... cttgttgcagGTGTTTATGTCATGAT
EST: gi|29637530|gb|CB642539.1|CB642539
EST:     CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAG                         GTGTTTATGTCATGATGT
genomic: CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAGgtattaactg ... cttgttgcagGTGTTTATGTCATGATGT
EST: gi|29672430|gb|CB668705.1|CB668705
EST:     CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAG                         GTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
genomic: CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAGgtattaactg ... cttgttgcagGTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
EST: gi|29668356|gb|CB664631.1|CB664631
EST:     CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAG                         GTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
genomic: CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAGgtattaactg ... cttgttgcagGTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
EST: gi|29674357|gb|CB670632.1|CB670632
EST:     CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAG                         GTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
genomic: CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAGgtattaactg ... cttgttgcagGTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
EST: gi|29661039|gb|CB657314.1|CB657314
EST:     GAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAAGA-GGGAAAG                         GTGTTTATGTCATGATGT
genomic: GAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAA-GAAGGGAAAGgtattaactg ... cttgttgcagGTGTTTATGTCATGATGT
EST: gi|29669233|gb|CB665508.1|CB665508
EST:     CGAGAATTGTTTTGTGCCCCATGANAACGTTCTCGGGGAAGAAGGGAAAG                         GTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTTGTGT-AGCT
genomic: CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAGgtattaactg ... cttgttgcagGTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTT-GTGTTAGCT
EST: gi|86823798|gb|CI258824.1|CI258824
EST:     CGAGAATTGTTTTGTGCCCCAGGAGAACGTTCTCGGGGAAGAAGGGAAAG                         GTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
genomic: CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAGgtattaactg ... cttgttgcagGTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
EST: gi|29644599|gb|CB649606.1|CB649606
EST:     CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAG                         GTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
genomic: CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAGgtattaactg ... cttgttgcagGTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
EST: gi|29662792|gb|CB659067.1|CB659067
EST:     CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAG                         GTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
genomic: CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAGgtattaactg ... cttgttgcagGTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
EST: gi|29643546|gb|CB648553.1|CB648553
EST:     CAAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAG                         GTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
genomic: CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAGgtattaactg ... cttgttgcagGTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
EST: gi|29663209|gb|CB659484.1|CB659484
EST:     CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAG                         GTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
genomic: CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAGgtattaactg ... cttgttgcagGTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
EST: gi|29637531|gb|CB642540.1|CB642540
EST:     CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAG                         GTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
genomic: CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAGgtattaactg ... cttgttgcagGTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
EST: gi|29673823|gb|CB670098.1|CB670098
EST:     CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAG                         GTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
genomic: CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAGgtattaactg ... cttgttgcagGTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
EST: gi|87026900|gb|CI259553.1|CI259553
EST:     AGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAG                         GTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
genomic: AGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAGgtattaactg ... cttgttgcagGTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
EST: gi|29664640|gb|CB660915.1|CB660915
EST:     CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAG                         GTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
genomic: CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAGgtattaactg ... cttgttgcagGTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
EST: gi|29663217|gb|CB659492.1|CB659492
EST:     CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAG                         GTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
genomic: CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAGgtattaactg ... cttgttgcagGTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
EST: gi|58595349|gb|CF993657.1|CF993657
EST:     CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAG                         GTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTCTTAGCTG
genomic: CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAGgtattaactg ... cttgttgcagGTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
EST: gi|29657681|gb|CB653956.1|CB653956
EST:     CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAG                         GTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
genomic: CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAGgtattaactg ... cttgttgcagGTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
EST: gi|29669234|gb|CB665509.1|CB665509
EST:     CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAG                         GTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
genomic: CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAGgtattaactg ... cttgttgcagGTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
EST: gi|29659705|gb|CB655980.1|CB655980
EST:     CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAG                         GTGTTTATGTCATGATGT
genomic: CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAGgtattaactg ... cttgttgcagGTGTTTATGTCATGATGT
EST: gi|29674434|gb|CB670709.1|CB670709
EST:     GTTTTGTGCCCCATGAAAACGTTATCGGGGAAGAAGGGAAAG                         GTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
genomic: GTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAGgtattaactg ... cttgttgcagGTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
EST: gi|29670747|gb|CB667022.1|CB667022
EST:     CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAG                         GTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
genomic: CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAGgtattaactg ... cttgttgcagGTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
EST: gi|29672136|gb|CB668411.1|CB668411
EST:     CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAG                         GTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
genomic: CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAGgtattaactg ... cttgttgcagGTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
EST: gi|29674356|gb|CB670631.1|CB670631
EST:     CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAG                         GTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
genomic: CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAGgtattaactg ... cttgttgcagGTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
EST: gi|29675357|gb|CB671632.1|CB671632
EST:     CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAG                         GTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
genomic: CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAGgtattaactg ... cttgttgcagGTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
EST: gi|29683358|gb|CB679633.1|CB679633
EST:     CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAG                         GTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
genomic: CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAGgtattaactg ... cttgttgcagGTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
EST: gi|29664111|gb|CB660386.1|CB660386
EST:     CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAG                         GTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
genomic: CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAGgtattaactg ... cttgttgcagGTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
EST: gi|29664203|gb|CB660478.1|CB660478
EST:     CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAG                         GTGTTTATGTCATGATGT
genomic: CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAGgtattaactg ... cttgttgcagGTGTTTATGTCATGATGT
EST: gi|29637681|gb|CB642690.1|CB642690
EST:     GGGAAGAAGGGAAAG                         GTGTTTATGTCATGATGTCAGGGCTCGATCTAGAAAGACTTGTGTTAGCTG
genomic: GGGAAGAAGGGAAAGgtattaactg ... cttgttgcagGTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
EST: gi|29672648|gb|CB668923.1|CB668923
EST:     CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAG                         GTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
genomic: CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAGgtattaactg ... cttgttgcagGTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
EST: gi|29667481|gb|CB663756.1|CB663756
EST:     CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAG                         GTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
genomic: CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAGgtattaactg ... cttgttgcagGTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
EST: gi|58594804|gb|CF993112.1|CF993112
EST:     CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAG                         GTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
genomic: CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAGgtattaactg ... cttgttgcagGTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
EST: gi|29642661|gb|CB647668.1|CB647668
EST:     GAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGGAAAG                         GTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCT
genomic: GAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAA-GGGAAAGgtattaactg ... cttgttgcagGTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCT
EST: gi|29642659|gb|CB647666.1|CB647666
EST:     CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAG                         GTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
genomic: CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAGgtattaactg ... cttgttgcagGTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
EST: gi|29680932|gb|CB677207.1|CB677207
EST:     CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAG                         GTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
genomic: CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAGgtattaactg ... cttgttgcagGTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
EST: gi|29664257|gb|CB660532.1|CB660532
EST:     CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAG                         GTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
genomic: CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAGgtattaactg ... cttgttgcagGTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
EST: gi|33683926|gb|CF312165.1|CF312165
EST:     CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAG                         GTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
genomic: CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAGgtattaactg ... cttgttgcagGTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
EST: gi|428577|gb|D24729.1|D24729
EST:     CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAG                         GTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
genomic: CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAGgtattaactg ... cttgttgcagGTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
EST: gi|33683556|gb|CF311795.1|CF311795
EST:     CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAG                         GTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
genomic: CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAGgtattaactg ... cttgttgcagGTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
EST: gi|29665695|gb|CB661970.1|CB661970
EST:     CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAG                         GTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
genomic: CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAGgtattaactg ... cttgttgcagGTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
EST: gi|29661040|gb|CB657315.1|CB657315
EST:     CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAG                         GTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
genomic: CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAGgtattaactg ... cttgttgcagGTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
EST: gi|29679285|gb|CB675560.1|CB675560
EST:     CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAG                         GTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
genomic: CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAGgtattaactg ... cttgttgcagGTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
EST: gi|29664204|gb|CB660479.1|CB660479
EST:     CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAG                         GTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
genomic: CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAGgtattaactg ... cttgttgcagGTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
EST: gi|29663798|gb|CB660073.1|CB660073
EST:     CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAG                         GTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
genomic: CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAGgtattaactg ... cttgttgcagGTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
EST: gi|29664256|gb|CB660531.1|CB660531
EST:     GAGAATTTGTTT-GTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAG                         GTGTTTATGTCATGATGT
genomic: GAGAATT-GTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAGgtattaactg ... cttgttgcagGTGTTTATGTCATGATGT
EST: gi|84117533|gb|CD151300.1|CD151300
EST:     CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAG                         GTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
genomic: CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAGgtattaactg ... cttgttgcagGTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
EST: gi|29637680|gb|CB642689.1|CB642689
EST:     CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAG                         GTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
genomic: CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAGgtattaactg ... cttgttgcagGTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
EST: gi|29671621|gb|CB667896.1|CB667896
EST:     CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAG                         GTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
genomic: CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAGgtattaactg ... cttgttgcagGTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
EST: gi|218479296|gb|FG957919.1|FG957919
EST:     CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAG                         GTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
genomic: CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAGgtattaactg ... cttgttgcagGTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
EST: gi|29678948|gb|CB675223.1|CB675223
EST:     CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAG                         GTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
genomic: CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAGgtattaactg ... cttgttgcagGTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
EST: gi|29669119|gb|CB665394.1|CB665394
EST:     CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAG                         GTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
genomic: CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAGgtattaactg ... cttgttgcagGTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
EST: gi|29661172|gb|CB657447.1|CB657447
EST:     CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAG                         GTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
genomic: CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAGgtattaactg ... cttgttgcagGTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
EST: gi|29680495|gb|CB676770.1|CB676770
EST:     CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAG                         GTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
genomic: CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAGgtattaactg ... cttgttgcagGTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
EST: gi|29658318|gb|CB654593.1|CB654593
EST:     CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAG                         GTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
genomic: CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAGgtattaactg ... cttgttgcagGTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
EST: gi|29680494|gb|CB676769.1|CB676769
EST:     CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGANAG                         GTGTTTATGTCATGATGT
genomic: CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAGgtattaactg ... cttgttgcagGTGTTTATGTCATGATGT
EST: gi|29661171|gb|CB657446.1|CB657446
EST:     CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAG                         GTGTTTATGTCATGATGTCAGGGCTTGAT
genomic: CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAGgtattaactg ... cttgttgcagGTGTTTATGTCATGATGTCAGGGCTTGAT
EST: gi|29661525|gb|CB657800.1|CB657800
EST:     CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAG                         GTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG
genomic: CGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAGgtattaactg ... cttgttgcagGTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTG

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 1 RNA-Seqlibrary.


Block sizes: 75 (upstream exon), 49 (downstream exon)
Score: 91

ATGTGAGCTTGTGTTCGAGAATTGTTTTGTGCCCCATGAAAACGTTCTCGGGGAAGAAGGGAAAGgtattaactg ... cttgttgcagGTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTGCAGGTCCTATCGGCCTCATGCAAGCATGCCTTGATGTAGCTGTTCCTTA




<











<


<











 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agccattgatcctgttatcatcctcaaagagtgaacagtttttttcttgttgcagGTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTGCAGGTCCTATCGGCCTCATGCAAGCATGCCTTGATGTAGCTGTTCCTTA
   cattgat  putative branch site (score: 91)
                                      tttttttcttgttgc  putative PPT
                                      tttttttctt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtattaactgctgattgtcgtaaacttagtcagaattcttgttgctatcctgagatatttattcagttgtgtacagtacagttgtttgcatctaccaaactgccactgtacacacagaaaactgtcataattctagccattgatcctgttatcatcctcaaagagtgaacagtttttttcttgttgcagGTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTGCAGGTCCTATCGGCCTCATGCAAGCATGCCTTGATGTAGCTGTTCCTTA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT