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 5'  3'   		2  
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 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaactaagctctctaaacccggttgctgctagctgtttaattaatttgatgagggtttttggtgagatgtgagaactgaagaattaacaaatcttgatcttgtttgtgtgtgtgtgcagGCCGACGTTCTGGAGGATCTGCAAGAGGAAGGACGTGGAGCAGTTCAAGGCGGACCCGTACCTGGCGACGCTGCTCAACTGCATGCTATGGGTGTTCTAC

Basic information

species Oryza sativa
transcript LOC_Os01g42090.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g42090.1 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G157675_T02 (Zea mays), 3'ss of exon 1
gtaactaagc-tctctaaacccggttgctgctagctg-----tttaattaatttgatgagggtttttggtgagatgtgagaactgaagaattaacaaatcttgatcttgt----ttgtgtgtgtgtgcagGCCGACGTTCTGGAGGATCTGCAAGAGGAAGGACGTGGAGCAGTTCAAGGCGGACCCGTACCTGGCGACGCTGCTCAACTGCATGCTATGGGTGTTCTAC
|||   |  | ||  |    |||| | |  || | ||     |||  || ||||| | ||||||||   ||   ||  | |     ||      |    | ||    |||    | | |||  ||||||||| |||||||||| |||||| ||||   |||||||||||| |||||||| ||||||| ||||||||||||||||||||||||||||| ||||||||||| 
gtaggcactcatcgatcggtccgggttcatctgggtggtttttttttttgatttggttagggttttgtttgtactgatatatggagaggcgcgccgccgcctgcatctgtgttctcgcgtgcctgtgcagGCTGACGTTCTGGCGGATCTACAAGGCCAAGGACGTGGAGGAGTTCAAGCCGGACCCTTACCTGGCGACGCTGCTCAACTGCATGCTCTGGGTGTTCTAT

upper sequence: LOC_Os01g42090.1 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G416965_T01 (Zea mays), 3'ss of exon 2
gtaacta-agctctctaaacccg-gttgctgctagct-gtttaattaatttgatgagggtttttggtgagatgtgagaactgaagaattaacaaatcttgatcttgtttgtgtgtgtgtgcagGCCGACGTTCTGGAGGATCTGCAAGAGGAAGGACGTGGAGCAGTTCAAGGCGGACCCGTACCTGGCGACGCTGCTCAACTGCATGCTATGGGTGTTCTAC
||||  |  | ||  |    ||| ||| |  | |||  |  |  |   ||| ||  ||    || | |   |||  |  |||| | |    |       |  | ||  | | |   ||||||| | |||||||||| |||||||||||   | |||||||||| |||| ||| | ||||| ||||||||||||||||||||||||||||| ||||||||||||
gtaagcacggatcgatccctccgcgtttcgacgagcgagcctggtggttttaatttgg----ttagggttttgtttgtgctgacggagaggcg------gcgcatgcatttttacctgtgcagTCTGACGTTCTGGCGGATCTGCAAGGCCAGGGACGTGGAGGAGTTTAAGCCTGACCCCTACCTGGCGACGCTGCTCAACTGCATGCTCTGGGTGTTCTAC
















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|88668966|gb|CI719923.1|CI719923
EST:     GTCGGCATCATCGGNAATGTCATCTCCTTCGGCCTCTTCCTCTCCCCCGT                         GCCGACGTTNTGGAGGATCTGCAAGAGGAAGGACGTGGAGCAGTTCAAGGC
genomic: GTCGGCATCATCGGCAATGTCATCTCCTTCGGCCTCTTCCTCTCCCCCGTgtaactaagc ... gtgtgtgcagGCCGACGTTCTGGAGGATCTGCAAGAGGAAGGACGTGGAGCAGTTCAAGGC
EST: gi|88594476|gb|CI714434.1|CI714434
EST:     GTCGGCATCATCGGCAATGTCATCTCCTTCGGCCTCTTCCTCTCCCCCGT                         GCCGACGTTCTGGAGGATCTGCAAGAGGAAGGACGTGGAGCAGTTCAAGGC
genomic: GTCGGCATCATCGGCAATGTCATCTCCTTCGGCCTCTTCCTCTCCCCCGTgtaactaagc ... gtgtgtgcagGCCGACGTTCTGGAGGATCTGCAAGAGGAAGGACGTGGAGCAGTTCAAGGC
EST: gi|88905343|gb|CI712642.1|CI712642
EST:     GTCGGCATCATCGGCAATGTCATCTCCTTCGGCCTCTTCCTCTCCCCCGT                         GCCGACGTTCTGGAGGATCTGCAAGAGGAAGGACGTGGAGCAGTTCAAGGC
genomic: GTCGGCATCATCGGCAATGTCATCTCCTTCGGCCTCTTCCTCTCCCCCGTgtaactaagc ... gtgtgtgcagGCCGACGTTCTGGAGGATCTGCAAGAGGAAGGACGTGGAGCAGTTCAAGGC
EST: gi|88983988|gb|CI723553.1|CI723553
EST:     GTCGGCATCATCGGCAATGTCATCTCCTTCGGCCTCTTCCTCTCCCCCGT                         GCCGACGTTCTGGAGGATCTGCAAGAGGAAGGACGTGGAGCAGTTCAAGGC
genomic: GTCGGCATCATCGGCAATGTCATCTCCTTCGGCCTCTTCCTCTCCCCCGTgtaactaagc ... gtgtgtgcagGCCGACGTTCTGGAGGATCTGCAAGAGGAAGGACGTGGAGCAGTTCAAGGC
EST: gi|88594734|gb|CI714692.1|CI714692
EST:     GTCGGCATCATCGGCAATGTCATCTCCTTCGGCCTCTTCCTCTCCCCCGT                         GCCGACGTTCTGGAGGATCTGCAAGAGGAAGGACGTGGAGCAGTTCAAGGC
genomic: GTCGGCATCATCGGCAATGTCATCTCCTTCGGCCTCTTCCTCTCCCCCGTgtaactaagc ... gtgtgtgcagGCCGACGTTCTGGAGGATCTGCAAGAGGAAGGACGTGGAGCAGTTCAAGGC
EST: gi|88580262|gb|CI692265.1|CI692265
EST:     GTCGGCATCATCGGCAATGTCATCTCCTTCGGCCTCTTCCTCTCCCCCGT                         GCCGACGTTCTGGAGGATCTGCAAGAGGAAGGACGTGGAGCAGTTCAAGGC
genomic: GTCGGCATCATCGGCAATGTCATCTCCTTCGGCCTCTTCCTCTCCCCCGTgtaactaagc ... gtgtgtgcagGCCGACGTTCTGGAGGATCTGCAAGAGGAAGGACGTGGAGCAGTTCAAGGC
EST: gi|88672630|gb|CI726746.1|CI726746
EST:     GTCGGCATCATCGGCAATGTCATCTCCTTCGGCCTCTTCCTCTCCCCCGT                         GCCGACGTTCTGGAGGATCTGCAAGAGGAAGGACGTGGAGCAGTTCAAGGG
genomic: GTCGGCATCATCGGCAATGTCATCTCCTTCGGCCTCTTCCTCTCCCCCGTgtaactaagc ... gtgtgtgcagGCCGACGTTCTGGAGGATCTGCAAGAGGAAGGACGTGGAGCAGTTCAAGGC
EST: gi|88973282|gb|CI717778.1|CI717778
EST:     GTCGGCATCATCGGCAATGTCATCTCCTTCGGCCTCTTCCTCTCCCCCGT                         GCCGACGTTCTGGAGGATCTGCAAGAGGAAGGACGTGGAGCAGTTCAAGGC
genomic: GTCGGCATCATCGGCAATGTCATCTCCTTCGGCCTCTTCCTCTCCCCCGTgtaactaagc ... gtgtgtgcagGCCGACGTTCTGGAGGATCTGCAAGAGGAAGGACGTGGAGCAGTTCAAGGC
EST: gi|88669647|gb|CI723763.1|CI723763
EST:     GTCGGCATCATCGGCAATGTCATCTCCTTCGGCCTCTTCCTCTCCCCCGT                         GCCGACGTTCTGGAGGATCTGCAAGAGGAAGGACGTGGAGCAGTTCAAGGC
genomic: GTCGGCATCATCGGCAATGTCATCTCCTTCGGCCTCTTCCTCTCCCCCGTgtaactaagc ... gtgtgtgcagGCCGACGTTCTGGAGGATCTGCAAGAGGAAGGACGTGGAGCAGTTCAAGGC
EST: gi|88594265|gb|CI714223.1|CI714223
EST:     GTCGGCATCATCGGCAATGTCATCTCCTTCGGCCTCTTCCTCTCCCCCGT                         GCCGACGTTCTGGAGGATCTGCAAGAGGAAGGACGTGGAGCAGTTCAAGGC
genomic: GTCGGCATCATCGGCAATGTCATCTCCTTCGGCCTCTTCCTCTCCCCCGTgtaactaagc ... gtgtgtgcagGCCGACGTTCTGGAGGATCTGCAAGAGGAAGGACGTGGAGCAGTTCAAGGC
EST: gi|88689782|gb|CI731360.1|CI731360
EST:     GTCGGCATCATCGGCAATGTCATCTCCTTCGGCCTCTTCCTCTCCCCCGT                         GCCGACGTTCTGGAGGATCTGCAAGAGGAAGGACGTGGAGCAGTTCAAGGC
genomic: GTCGGCATCATCGGCAATGTCATCTCCTTCGGCCTCTTCCTCTCCCCCGTgtaactaagc ... gtgtgtgcagGCCGACGTTCTGGAGGATCTGCAAGAGGAAGGACGTGGAGCAGTTCAAGGC
EST: gi|88676941|gb|CI731054.1|CI731054
EST:     GTCGGNATCATCGGNAATGTCATCTCCTTCGGCCTCTTCCTCTCCCCCGT                         GCCGACGTTCTGGAGGATCTGCAAGAGGAAGGACGTGGAGCAGTTCAAGGC
genomic: GTCGGCATCATCGGCAATGTCATCTCCTTCGGCCTCTTCCTCTCCCCCGTgtaactaagc ... gtgtgtgcagGCCGACGTTCTGGAGGATCTGCAAGAGGAAGGACGTGGAGCAGTTCAAGGC
EST: gi|88905608|gb|CI712907.1|CI712907
EST:     GTCGGCATCATCGGCAATGTCATCTCCTTCGGCCTCTTCCTCTCCCCCGT                         GCCGACGTTCTGGAGGATCTGCAAGAGGAAGGACGTGGAGCAGTTCAAGGC
genomic: GTCGGCATCATCGGCAATGTCATCTCCTTCGGCCTCTTCCTCTCCCCCGTgtaactaagc ... gtgtgtgcagGCCGACGTTCTGGAGGATCTGCAAGAGGAAGGACGTGGAGCAGTTCAAGGC
EST: gi|88909107|gb|CI718415.1|CI718415
EST:     GTCGGCATCATCGGCAATGTCATCTCCTTCGGCCTCTTCCTCTCCCCCGT                         GCCGACGTTCTGGAGGATCTGNAAGAGGAAGGACGTGGAGCAGTTCAAGGC
genomic: GTCGGCATCATCGGCAATGTCATCTCCTTCGGCCTCTTCCTCTCCCCCGTgtaactaagc ... gtgtgtgcagGCCGACGTTCTGGAGGATCTGCAAGAGGAAGGACGTGGAGCAGTTCAAGGC
EST: gi|88676774|gb|CI730887.1|CI730887
EST:     GTCGGCATCATCGGCAATGTCATCTCCTTCGGCCTCTTCCTCTCCCCCGT                         GCCGACGTTCTGGAGGATCTGCAAGAGGAAGGACGTGGAGCAGTTCAAGGC
genomic: GTCGGCATCATCGGCAATGTCATCTCCTTCGGCCTCTTCCTCTCCCCCGTgtaactaagc ... gtgtgtgcagGCCGACGTTCTGGAGGATCTGCAAGAGGAAGGACGTGGAGCAGTTCAAGGC
EST: gi|88904481|gb|CI711789.1|CI711789
EST:     CTCGGCATCATCGGCAATGTCATCTCCTTCGGCCTCTTCCTCTCCCCCGT                         GCCGACGTTCTGGAGGATCTGCAAGAGGAAGGACGTGGAGCAGTTCAAGGC
genomic: -TCGGCATCATCGGCAATGTCATCTCCTTCGGCCTCTTCCTCTCCCCCGTgtaactaagc ... gtgtgtgcagGCCGACGTTCTGGAGGATCTGCAAGAGGAAGGACGTGGAGCAGTTCAAGGC
EST: gi|88674354|gb|CI728467.1|CI728467
EST:     GTCGGCATCATCGGCAATGTCATCTCCTTCGGCCTCTTCCTCTCCCCCGT                         GCCGACGTTCTGGAGGATCTGCAAGAGGAAGGACGTGGAGCAGTTCAAGGC
genomic: GTCGGCATCATCGGCAATGTCATCTCCTTCGGCCTCTTCCTCTCCCCCGTgtaactaagc ... gtgtgtgcagGCCGACGTTCTGGAGGATCTGCAAGAGGAAGGACGTGGAGCAGTTCAAGGC
EST: gi|88908779|gb|CI714921.1|CI714921
EST:     GTCGGCATCATCGGCAATGTCATCTCCTTCGGCCTCTTCCTCTCCCCCGT                         GCCGACGTTCTGGAGGATCTGCAAGAGGAAGGACGTGGAGCAGTTCAAGGC
genomic: GTCGGCATCATCGGCAATGTCATCTCCTTCGGCCTCTTCCTCTCCCCCGTgtaactaagc ... gtgtgtgcagGCCGACGTTCTGGAGGATCTGCAAGAGGAAGGACGTGGAGCAGTTCAAGGC
EST: gi|88904560|gb|CI711859.1|CI711859
EST:     GTCGGCATCATCGGCAATGTCATCTCCTTCGGCCTCTTCCTCTCCCCCGT                         GCCGACGTTCTGGAGGATCTGCAAGAGGAAGGACGTGGAGCAGTTCAAGGC
genomic: GTCGGCATCATCGGCAATGTCATCTCCTTCGGCCTCTTCCTCTCCCCCGTgtaactaagc ... gtgtgtgcagGCCGACGTTCTGGAGGATCTGCAAGAGGAAGGACGTGGAGCAGTTCAAGGC
EST: gi|89172658|gb|CI721717.1|CI721717
EST:     GTCGGCATCATCGGCAATGTCATCTCCTTCGGCCTCTTCCTCTCCCCCGT                         GCCGACGTTCTGGAGGATCTGCAAGAGGAAGGACGTGGAGCAGTTCAAGGC
genomic: GTCGGCATCATCGGCAATGTCATCTCCTTCGGCCTCTTCCTCTCCCCCGTgtaactaagc ... gtgtgtgcagGCCGACGTTCTGGAGGATCTGCAAGAGGAAGGACGTGGAGCAGTTCAAGGC
EST: gi|88593573|gb|CI713527.1|CI713527
EST:     GTCGGCATCATCGGCAATGTCATCTCCTTCGGCCTCTTCCTCTCCCCCGT                         GCCGACGTTCTGGAGGATCTGCAAGAGGAAGGACGTGGAGCAGTTCAAGGC
genomic: GTCGGCATCATCGGCAATGTCATCTCCTTCGGCCTCTTCCTCTCCCCCGTgtaactaagc ... gtgtgtgcagGCCGACGTTCTGGAGGATCTGCAAGAGGAAGGACGTGGAGCAGTTCAAGGC
EST: gi|88666200|gb|CI716356.1|CI716356
EST:     GTCGGCATCATCGGCAATGTCATCTCCTTCGGCCTCTTCCTCTCCCCCGT                         GCCGACGTTCTGGAGGATCTGNAAGAGGAAGGACGTGGAGCAGTTCAAGGC
genomic: GTCGGCATCATCGGCAATGTCATCTCCTTCGGCCTCTTCCTCTCCCCCGTgtaactaagc ... gtgtgtgcagGCCGACGTTCTGGAGGATCTGCAAGAGGAAGGACGTGGAGCAGTTCAAGGC
EST: gi|89172310|gb|CI721369.1|CI721369
EST:     GTCGGCATCATCGGCAATGTCATCTCCTTCGGCCTCTTCCTCTCCCCCGT                         GCCGACGTTCTGGAGGATCTGCAAGAGGAAGGACGTGGAGCAGTTCAAGGC
genomic: GTCGGCATCATCGGCAATGTCATCTCCTTCGGCCTCTTCCTCTCCCCCGTgtaactaagc ... gtgtgtgcagGCCGACGTTCTGGAGGATCTGCAAGAGGAAGGACGTGGAGCAGTTCAAGGC
EST: gi|88673232|gb|CI726007.1|CI726007
EST:     GTCGGCATCATCGGCAATGTCATCTCCTTCGGCCTCTTCCTCTCCCCCGT                         GCCGACGTTCTGGAGGATCTGCAAGAGGAAGGACGTGGAGCAGTTCAAGGC
genomic: GTCGGCATCATCGGCAATGTCATCTCCTTCGGCCTCTTCCTCTCCCCCGTgtaactaagc ... gtgtgtgcagGCCGACGTTCTGGAGGATCTGCAAGAGGAAGGACGTGGAGCAGTTCAAGGC
EST: gi|88671009|gb|CI725125.1|CI725125
EST:     GTCGGCATCATCGGCAATGTCATCTCCTTCGGCCTCTTCCTCTCCCCCGT                         GCCGACGTTCTGGAGGATCTGCAAGAGGAAGGACGTGGAGCAGTTCAAGGC
genomic: GTCGGCATCATCGGCAATGTCATCTCCTTCGGCCTCTTCCTCTCCCCCGTgtaactaagc ... gtgtgtgcagGCCGACGTTCTGGAGGATCTGCAAGAGGAAGGACGTGGAGCAGTTCAAGGC
EST: gi|88668726|gb|CI719683.1|CI719683
EST:     GTCGGCATCATCGGCAATGTCATCTCCTTCGGCCTCTTCCTCTCCCCCGT                         GCCGACGTTCTGGAGGATCTGCAAGAGGAAGGACGTGGAGCAGTTCAAGGC
genomic: GTCGGCATCATCGGCAATGTCATCTCCTTCGGCCTCTTCCTCTCCCCCGTgtaactaagc ... gtgtgtgcagGCCGACGTTCTGGAGGATCTGCAAGAGGAAGGACGTGGAGCAGTTCAAGGC
EST: gi|88670105|gb|CI724221.1|CI724221
EST:     GTCGGCATCATCGGCAATGTCATCTCCTTCGGCCTCTTCCTCTCCCCCGT                         GCCGACGTTCTGGAGGATCTGCAAGAGGAAGGACGTGGAGCAGTTCAAGGC
genomic: GTCGGCATCATCGGCAATGTCATCTCCTTCGGCCTCTTCCTCTCCCCCGTgtaactaagc ... gtgtgtgcagGCCGACGTTCTGGAGGATCTGCAAGAGGAAGGACGTGGAGCAGTTCAAGGC
EST: gi|88954484|gb|CI718463.1|CI718463
EST:     GTCGGCATCATCGGCAATGTCATCTCCTTCGGCCTCTTCCTCTCCCCCGT                         GCCGACGTTCTGGAGGATCTGCAAGAGGAAGGACGTGGAGCAGTTCAAGGC
genomic: GTCGGCATCATCGGCAATGTCATCTCCTTCGGCCTCTTCCTCTCCCCCGTgtaactaagc ... gtgtgtgcagGCCGACGTTCTGGAGGATCTGCAAGAGGAAGGACGTGGAGCAGTTCAAGGC
EST: gi|88666591|gb|CI718727.1|CI718727
EST:     GTCGGCATCATCGGCAATGTCATCTCCTTCGGCCTCTTCCTCTCCCCCGT                         GCCGACGTTCTGGAGGATCTGCAAGAGGAAGGACGTGGAGCAGTTCAAGGC
genomic: GTCGGCATCATCGGCAATGTCATCTCCTTCGGCCTCTTCCTCTCCCCCGTgtaactaagc ... gtgtgtgcagGCCGACGTTCTGGAGGATCTGCAAGAGGAAGGACGTGGAGCAGTTCAAGGC
EST: gi|88667205|gb|CI715363.1|CI715363
EST:     GTCGGCATCATCGGCAATGTCATCTCCTTCGGCCTCTTCCTCTCCCCCGT                         GCCGACGTTCTGGAGGATCTGCAAGAGGAAGGACGTGGAGCAGTTCAAGGC
genomic: GTCGGCATCATCGGCAATGTCATCTCCTTCGGCCTCTTCCTCTCCCCCGTgtaactaagc ... gtgtgtgcagGCCGACGTTCTGGAGGATCTGCAAGAGGAAGGACGTGGAGCAGTTCAAGGC
EST: gi|88668994|gb|CI719951.1|CI719951
EST:     GTCGGCATCATCGGCAATGTCATCTCCTTCGGCCTCTTCCTCTCCCCCGT                         GCCGACGTTCTGGAGGATCTGCAAGAGGAAGGACGTGGAGCAGTTCAAGGC
genomic: GTCGGCATCATCGGCAATGTCATCTCCTTCGGCCTCTTCCTCTCCCCCGTgtaactaagc ... gtgtgtgcagGCCGACGTTCTGGAGGATCTGCAAGAGGAAGGACGTGGAGCAGTTCAAGGC
EST: gi|88959531|gb|CI716899.1|CI716899
EST:     GTCGGCATCATCGGCAATGTCATCTCCTTCGGCCTCTTCCTCTCCCCCGT                         GCCGACGTTCTGGAGGATCTGCAAGAGGAAGGACGTGGAGCAGTTCAAGGC
genomic: GTCGGCATCATCGGCAATGTCATCTCCTTCGGCCTCTTCCTCTCCCCCGTgtaactaagc ... gtgtgtgcagGCCGACGTTCTGGAGGATCTGCAAGAGGAAGGACGTGGAGCAGTTCAAGGC
EST: gi|88666487|gb|CI718623.1|CI718623
EST:     GTCGGCATCATCGGCAATGTCATCTCCTTCGGCCTCTTCCTCTCCCCCGT                         GCCGACGTTCTGGAGGATCTGCAAGAGGAAGGACGTGGAGCAGTTCAAGGC
genomic: GTCGGCATCATCGGCAATGTCATCTCCTTCGGCCTCTTCCTCTCCCCCGTgtaactaagc ... gtgtgtgcagGCCGACGTTCTGGAGGATCTGCAAGAGGAAGGACGTGGAGCAGTTCAAGGC
EST: gi|88594362|gb|CI714320.1|CI714320
EST:     GTCGGCATCATCGGCAATGTCATCTCCTTCGGCCTCTTCCTCTCCCCCGT                         GCCGACGTTCTGGAGGATCTGCAAGAGGAAGGACGTGGAGCAGTTCAAGGC
genomic: GTCGGCATCATCGGCAATGTCATCTCCTTCGGCCTCTTCCTCTCCCCCGTgtaactaagc ... gtgtgtgcagGCCGACGTTCTGGAGGATCTGCAAGAGGAAGGACGTGGAGCAGTTCAAGGC
EST: gi|88676759|gb|CI730872.1|CI730872
EST:     GTCGGCATCATCGGCAATGTCATCTCCTTCGGCCTCTTCCTCTCCCCCGT                         GCCGACGTTCTGGAGGATCTGCAAGAGGAAGGACGTGGAGCAGTTCAAGGC
genomic: GTCGGCATCATCGGCAATGTCATCTCCTTCGGCCTCTTCCTCTCCCCCGTgtaactaagc ... gtgtgtgcagGCCGACGTTCTGGAGGATCTGCAAGAGGAAGGACGTGGAGCAGTTCAAGGC
EST: gi|88984145|gb|CI723701.1|CI723701
EST:     GTCGGCATCATCGGCAATGTCATCTCCTTCGGCCTCTTCCTCTCCCCCGT                         GCCGACGTTCTGGAGGATCTGCAAGAGGAAGGACGTGGAGCAGTTCAAGGC
genomic: GTCGGCATCATCGGCAATGTCATCTCCTTCGGCCTCTTCCTCTCCCCCGTgtaactaagc ... gtgtgtgcagGCCGACGTTCTGGAGGATCTGCAAGAGGAAGGACGTGGAGCAGTTCAAGGC
EST: gi|88666297|gb|CI716453.1|CI716453
EST:     GTCGGCATCATCGGCAATGTCATCTCCTTCGGCCTCTTCCTCTCCCCCGT                         GCCGACGTTCTGGAGGATCTGCAAGAGGAAGGACGTGGAGCAGTTCAAGGC
genomic: GTCGGCATCATCGGCAATGTCATCTCCTTCGGCCTCTTCCTCTCCCCCGTgtaactaagc ... gtgtgtgcagGCCGACGTTCTGGAGGATCTGCAAGAGGAAGGACGTGGAGCAGTTCAAGGC

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: 50 (upstream exon), 46 (downstream exon)
Score: 4

CTGCCATCTAGCTAGCAAAGATGATCTCCCCGGACGCGGCTCGCAACGTCGTCGGCATCATCGGCAATGTCATCTCCTTCGGCCTCTTCCTCTCCCCCGTgtaactaagc ... gtgtgtgcagGCCGACGTTCTGGAGGATCTGCAAGAGGAAGGACGTGGAGCAGTTCAAGGCGGACCCGTACCTGGCGACGCTGCTCAACTGCATGCTATGGGTGTTCTAC




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agatgtgagaactgaagaattaacaaatcttgatcttgtttgtgtgtgtgtgcagGCCGACGTTCTGGAGGATCTGCAAGAGGAAGGACGTGGAGCAGTTCAAGGCGGACCCGTACCTGGCGACGCTGCTCAACTGCATGCTATGGGTGTTCTAC
              aagaattaacaaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaactaagctctctaaacccggttgctgctagctgtttaattaatttgatgagggtttttggtgagatgtgagaactgaagaattaacaaatcttgatcttgtttgtgtgtgtgtgcagGCCGACGTTCTGGAGGATCTGCAAGAGGAAGGACGTGGAGCAGTTCAAGGCGGACCCGTACCTGGCGACGCTGCTCAACTGCATGCTATGGGTGTTCTAC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT