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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGCTCCCCTTCTTCTTCTACTCTCCCCATCTCGGCTCTCGCCATCGCCATCCTCCTCTCCCTTCCCGGAGAAGACGCCTCCCTCCGCCGATCACCACCCGgtaagcccagtgtgcttaggctaagcgcactagagcttcttgctcgcttgcttcttctccgctcagatctgcttgcttgcttgcttcgctagaaccctactctgtgctgcgagtgtcgctgcttcgtcttccttcctcaagttcgatctgattgtgtgtgtgggggggcgcag

Basic information

species Oryza sativa
transcript LOC_Os01g07760.1
intron # 1
splice site 5'
intron type U2

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|88392732|gb|CI623963.1|CI623963
EST:     CCTCCTCTCCCTTCCCGGAGAAGACGCCTCCCTCCGCCGATCACCACCCG                         GTAGGGCGAGGAGGGAGCCAAATCCAAATCAGCAGCCATGGCGCAGATGCT
genomic: CCTCCTCTCCCTTCCCGGAGAAGACGCCTCCCTCCGCCGATCACCACCCGgtaagcccag ... gggggcgcagGTAGGGCGAGGAGGGAGCCAAATCCAAATCAGCAGCCATGGCGCAGATGCT
EST: gi|88725244|gb|CI748503.1|CI748503
EST:     CCTCCTCTCCCTTCCCGGAGAAGACGCCTCCCTCCGNCGATCACCACCCG                         GTAGGGCGAGGAGGGAGCCAAATCNAAATCAGCAGCCATGGCGCAGATGCT
genomic: CCTCCTCTCCCTTCCCGGAGAAGACGCCTCCCTCCGCCGATCACCACCCGgtaagcccag ... gggggcgcagGTAGGGCGAGGAGGGAGCCAAATCCAAATCAGCAGCCATGGCGCAGATGCT
EST: gi|88761512|gb|CI771068.1|CI771068
EST:     CCTCCTCTCCCTTCCCGGAGAAGACGCCTCCCTCCGCCGATCACCACCCG                         GTAGGGCGAGGAGGGAGCCAAATCCAAATCAGCAGCCATGGCGCAGATGCT
genomic: CCTCCTCTCCCTTCCCGGAGAAGACGCCTCCCTCCGCCGATCACCACCCGgtaagcccag ... gggggcgcagGTAGGGCGAGGAGGGAGCCAAATCCAAATCAGCAGCCATGGCGCAGATGCT
EST: gi|88315650|gb|CI615522.1|CI615522
EST:     CCTCCTCTCCCTTCCCGGAGAAGACGCCTCCCTCCGCCGATCACCACCCG                         GTAGGGCGAGGAGGGAGCCAAATCCAAATCAGCAGCCATGGCGCAGATGCT
genomic: CCTCCTCTCCCTTCCCGGAGAAGACGCCTCCCTCCGCCGATCACCACCCGgtaagcccag ... gggggcgcagGTAGGGCGAGGAGGGAGCCAAATCCAAATCAGCAGCCATGGCGCAGATGCT
EST: gi|88432310|gb|CI565343.1|CI565343
EST:     CCTCCTCTCCCTTCCCGGAGAAGACGCCTCCCTCCGCCGATCACCACCCG                         GTAGGGCGAGGAGGGAGCCAAATCCAAATCAGCAGCCATGGCGCAGATGCT
genomic: CCTCCTCTCCCTTCCCGGAGAAGACGCCTCCCTCCGCCGATCACCACCCGgtaagcccag ... gggggcgcagGTAGGGCGAGGAGGGAGCCAAATCCAAATCAGCAGCCATGGCGCAGATGCT
EST: gi|88400621|gb|CI596042.1|CI596042
EST:     CCTCCTCTCCCTTCCCGGAGAAGACGCCTCCCTCCGCCGATCACCACCCG                         GTAGGGCGAGGAGGGAGCCAAATCCAAATCAGCAGCCATGGCGCAGATGCT
genomic: CCTCCTCTCCCTTCCCGGAGAAGACGCCTCCCTCCGCCGATCACCACCCGgtaagcccag ... gggggcgcagGTAGGGCGAGGAGGGAGCCAAATCCAAATCAGCAGCCATGGCGCAGATGCT
EST: gi|88389282|gb|CI598080.1|CI598080
EST:     CCTCCTCTCCCTTCCCGGAGAAGACGCCTCCCTCCGCCGATCACCACCCG                         GTAGGGCGAGGAGGGAGCCAAATCCAAATCAGCAGCCATGGCGCAGATGCT
genomic: CCTCCTCTCCCTTCCCGGAGAAGACGCCTCCCTCCGCCGATCACCACCCGgtaagcccag ... gggggcgcagGTAGGGCGAGGAGGGAGCCAAATCCAAATCAGCAGCCATGGCGCAGATGCT
EST: gi|88398789|gb|CI601125.1|CI601125
EST:     CCTCCTCTCCCTTCCCGGAGAAGACGCCTCCCTCCGCCGATCACCACCCG                         GTAGGGCGAGGAGGGAGCCAAATCCAAATCAGCAGCCATGGCGCAGATGCT
genomic: CCTCCTCTCCCTTCCCGGAGAAGACGCCTCCCTCCGCCGATCACCACCCGgtaagcccag ... gggggcgcagGTAGGGCGAGGAGGGAGCCAAATCCAAATCAGCAGCCATGGCGCAGATGCT
EST: gi|88365109|gb|CI616528.1|CI616528
EST:     CCTCCTCTCCCTTCCCGGAGAAGACGCCTCCCTCCGCCGATCACCACCCG                         GTAGGGCGAGGAGGGAGCCAAATCCAAATCAGCAGCCATGGCGCAGATGCT
genomic: CCTCCTCTCCCTTCCCGGAGAAGACGCCTCCCTCCGCCGATCACCACCCGgtaagcccag ... gggggcgcagGTAGGGCGAGGAGGGAGCCAAATCCAAATCAGCAGCCATGGCGCAGATGCT
EST: gi|88732760|gb|CI755937.1|CI755937
EST:     CCTCCTCTCCCTTCCCGGAGAAGACGCCTCCCTCCGCCGATCACCACCCG                         GTAGGGCGAGGAGGGAGCCAAATCCAAATCAGCAGCCATGGCGCAGATGCT
genomic: CCTCCTCTCCCTTCCCGGAGAAGACGCCTCCCTCCGCCGATCACCACCCGgtaagcccag ... gggggcgcagGTAGGGCGAGGAGGGAGCCAAATCCAAATCAGCAGCCATGGCGCAGATGCT
EST: gi|88347274|gb|CI632559.1|CI632559
EST:     CCTCCTCTCCCTTCCCGGAGAAGACGCCTCCCTCCGCCGATCACCACCCG                         GTAGGGCGAGGAGGGAGCCAAATCCAAATCAGCAGCCATGGCGCAGATGCT
genomic: CCTCCTCTCCCTTCCCGGAGAAGACGCCTCCCTCCGCCGATCACCACCCGgtaagcccag ... gggggcgcagGTAGGGCGAGGAGGGAGCCAAATCCAAATCAGCAGCCATGGCGCAGATGCT
EST: gi|58598740|gb|CK009268.1|CK009268
EST:     CCTCCTCTCCCTTCCCGGAGAAGACGCCTCCCTCCGCCGATCACCACCCG                         GTAGGGCGAGGAGGGAGCCAAATCCAAATCAGCAGCCATGGCGCAGATGCT
genomic: CCTCCTCTCCCTTCCCGGAGAAGACGCCTCCCTCCGCCGATCACCACCCGgtaagcccag ... gggggcgcagGTAGGGCGAGGAGGGAGCCAAATCCAAATCAGCAGCCATGGCGCAGATGCT
EST: gi|88360793|gb|CI647803.1|CI647803
EST:     CCTCCTCTCCCTTCCCGGAGAAGACGCCTCCCTCCGCCGATCACCACCCG                         GTAGGGCGAGGAGGGAGCCAAATCCAAATCAGCAGCCATGGCGCAGATGCT
genomic: CCTCCTCTCCCTTCCCGGAGAAGACGCCTCCCTCCGCCGATCACCACCCGgtaagcccag ... gggggcgcagGTAGGGCGAGGAGGGAGCCAAATCCAAATCAGCAGCCATGGCGCAGATGCT
EST: gi|29622268|gb|CB627279.1|CB627279
EST:     CCTCCGCCGATCACCGCCCG                         GCTAGGGCGAGGAGGGAGCCAAATCCAAATGAGCAGCCATGGCGCATATGC
genomic: CCTCCGCCGATCACCACCCGgtaagcccag ... gggggcgcagG-TAGGGCGAGGAGGGAGCCAAATCCAAATCAGCAGCCATGGCGCAGATGC
EST: gi|88372589|gb|CI610912.1|CI610912
EST:     CCTCCTCTCCCTTCCCGGAGAAGACGCCTCCCTCCGCCGATCACCACCCG                         GTAGGGCGAGGAGGGAGCCAAATCCAAATCAGCAGCCATGGCGCAGATGCT
genomic: CCTCCTCTCCCTTCCCGGAGAAGACGCCTCCCTCCGCCGATCACCACCCGgtaagcccag ... gggggcgcagGTAGGGCGAGGAGGGAGCCAAATCCAAATCAGCAGCCATGGCGCAGATGCT
EST: gi|88311884|gb|CI577490.1|CI577490
EST:     CCTCCTCTCCCTTCCCGGAGAAGACGCCTCCCTCCGCCGATCACCACCCG                         GTAGGGCGAGGAGGGAGCCAAATCCAAATCAGCAGCCATGGCGCAGATGCT
genomic: CCTCCTCTCCCTTCCCGGAGAAGACGCCTCCCTCCGCCGATCACCACCCGgtaagcccag ... gggggcgcagGTAGGGCGAGGAGGGAGCCAAATCCAAATCAGCAGCCATGGCGCAGATGCT
EST: gi|29635562|gb|CB640571.1|CB640571
EST:     CCTCCTCTCCCTTCCCGGAGAAGACGCCTCCCTCCGCCGATCACCACCCG                         GTAGGGCGAGGAGGGAGCCAAATCCAAATCAGCAGCCATGGCGCAGATGCT
genomic: CCTCCTCTCCCTTCCCGGAGAAGACGCCTCCCTCCGCCGATCACCACCCGgtaagcccag ... gggggcgcagGTAGGGCGAGGAGGGAGCCAAATCCAAATCAGCAGCCATGGCGCAGATGCT
EST: gi|88744148|gb|CI767508.1|CI767508
EST:     CCTCCTCTCCCTTCCCGGAGAAGACGCCTCCCTCCGCCGATCACCACCCG                         GTAGGGCGAGGAGGGAGCCAAATCCAAATCAGCAGCCATGGCGCAGATGCT
genomic: CCTCCTCTCCCTTCCCGGAGAAGACGCCTCCCTCCGCCGATCACCACCCGgtaagcccag ... gggggcgcagGTAGGGCGAGGAGGGAGCCAAATCCAAATCAGCAGCCATGGCGCAGATGCT
EST: gi|88398487|gb|CI595888.1|CI595888
EST:     CCTCCTCTCCCTTCCCGGAGAAGACGCCTCCCTCCGCCGATCACCACCCG                         GTAGGGCGAGGAGGGAGCCAAATCCAAATCAGCAGCCATGGCGCAGATGCT
genomic: CCTCCTCTCCCTTCCCGGAGAAGACGCCTCCCTCCGCCGATCACCACCCGgtaagcccag ... gggggcgcagGTAGGGCGAGGAGGGAGCCAAATCCAAATCAGCAGCCATGGCGCAGATGCT
EST: gi|88314768|gb|CI608227.1|CI608227
EST:     CCTCCTCTCCCTTCCCGGAGAAGACGCCTCCCTCCGGCGATCACCACCCG                         GTAGGGCGAGGAGGGAGCCAAATCCAAATCAGCAGCCATGGCGCAGATGCT
genomic: CCTCCTCTCCCTTCCCGGAGAAGACGCCTCCCTCCGCCGATCACCACCCGgtaagcccag ... gggggcgcagGTAGGGCGAGGAGGGAGCCAAATCCAAATCAGCAGCCATGGCGCAGATGCT
EST: gi|88368045|gb|CI572766.1|CI572766
EST:     CCTCCTCTCCCTTCCCGGAGAAGACGCCTCCCTCCGCCGATCACCACCCG                         GTAGGGCGAGGAGGGAGCCAAATCCAAATCAGCAGCCATGGCGCAGATGCT
genomic: CCTCCTCTCCCTTCCCGGAGAAGACGCCTCCCTCCGCCGATCACCACCCGgtaagcccag ... gggggcgcagGTAGGGCGAGGAGGGAGCCAAATCCAAATCAGCAGCCATGGCGCAGATGCT
EST: gi|88409864|gb|CI571121.1|CI571121
EST:     CCTCCTCTCCCTTCCCGGAGAAGACGCCTCCCTCCGACGATCACCACCCG                         GTAGGGCGAGGAGGGAGCCAAATCCAAATCAGCAGCCATGGCGCAGATGCT
genomic: CCTCCTCTCCCTTCCCGGAGAAGACGCCTCCCTCCGCCGATCACCACCCGgtaagcccag ... gggggcgcagGTAGGGCGAGGAGGGAGCCAAATCCAAATCAGCAGCCATGGCGCAGATGCT
EST: gi|88352503|gb|CI654328.1|CI654328
EST:     CCTCCTCTCCCTTCCCGGAGAAGACGCCTCCCTCCGCCGATCACCACCCG                         GTAGGGCGAGGAGGGAGCCAAATCCAAATCAGCAGCCATGGCGCAGATGCT
genomic: CCTCCTCTCCCTTCCCGGAGAAGACGCCTCCCTCCGCCGATCACCACCCGgtaagcccag ... gggggcgcagGTAGGGCGAGGAGGGAGCCAAATCCAAATCAGCAGCCATGGCGCAGATGCT
EST: gi|88741551|gb|CI765059.1|CI765059
EST:     CCTCCTCTCCCTTCCCGGGGAAGACGCCTCCCTCCGCCGATCACCACCCG                         GTAGGGCGAGGAGGGAGCCAAATCCAAATCAGCAGCCATGGCGCAGATGCT
genomic: CCTCCTCTCCCTTCCCGGAGAAGACGCCTCCCTCCGCCGATCACCACCCGgtaagcccag ... gggggcgcagGTAGGGCGAGGAGGGAGCCAAATCCAAATCAGCAGCCATGGCGCAGATGCT
EST: gi|88405592|gb|CI588798.1|CI588798
EST:     CCTCCTCTCCCTTCCCGGAGAAGACGCCTCCCTCCGCCGATCACCACCCG                         GTAGGGCGAGGAGGGAGCCAAATCC-AATCAGCAGCCATGGCGCAGATGCT
genomic: CCTCCTCTCCCTTCCCGGAGAAGACGCCTCCCTCCGCCGATCACCACCCGgtaagcccag ... gggggcgcagGTAGGGCGAGGAGGGAGCCAAATCCAAATCAGCAGCCATGGCGCAGATGCT
EST: gi|88730406|gb|CI754019.1|CI754019
EST:     CCTCCTCTCCCTTCCCGGAGAAGACGCCTCCCTCCGCCGATCACCACCCG                         GTAGGGCGAGGAGGGAGCCAAATCCAAATCAGCAGCCATGGCGCAGATGCT
genomic: CCTCCTCTCCCTTCCCGGAGAAGACGCCTCCCTCCGCCGATCACCACCCGgtaagcccag ... gggggcgcagGTAGGGCGAGGAGGGAGCCAAATCCAAATCAGCAGCCATGGCGCAGATGCT
EST: gi|88403010|gb|CI568784.1|CI568784
EST:     CCTCCTCTCCCTTCCCGGAGAAGACGCCTCCCTCCGCCGATCACCACCCG                         GTAGGGCGAGGAGGGAGCCAAATCCAAATCAGCAGCCATGGCGCAGATGCT
genomic: CCTCCTCTCCCTTCCCGGAGAAGACGCCTCCCTCCGCCGATCACCACCCGgtaagcccag ... gggggcgcagGTAGGGCGAGGAGGGAGCCAAATCCAAATCAGCAGCCATGGCGCAGATGCT
EST: gi|29633779|gb|CB638788.1|CB638788
EST:     GCCTCCCTCCGCCGATCACCACCCG                         GTAGGGCGAGGAGGGAGCCAAATCCAAATCAGCAGCCATGGCGCAGATGCT
genomic: GCCTCCCTCCGCCGATCACCACCCGgtaagcccag ... gggggcgcagGTAGGGCGAGGAGGGAGCCAAATCCAAATCAGCAGCCATGGCGCAGATGCT
EST: gi|29635650|gb|CB640659.1|CB640659
EST:     CCTCCTCTCCCTTCCCGGAGAAGACGCCTCCCTCCGCCGATCACCACCCG                         GTAGGGCGAGGAGGGAGCCAAATCCAAATCAGCAGCCATGGCGCAGATGCT
genomic: CCTCCTCTCCCTTCCCGGAGAAGACGCCTCCCTCCGCCGATCACCACCCGgtaagcccag ... gggggcgcagGTAGGGCGAGGAGGGAGCCAAATCCAAATCAGCAGCCATGGCGCAGATGCT
EST: gi|58658982|gb|CK047662.1|CK047662
EST:     CCTCCTCTCCCTTCCCGGAGAAGACGCCTCCCTCCGCCGATCACCACCCG                         GTAGGGCGAGGAGGGAGCCAAATCCAAATCAGCAGCCATGGCGCAGATGCT
genomic: CCTCCTCTCCCTTCCCGGAGAAGACGCCTCCCTCCGCCGATCACCACCCGgtaagcccag ... gggggcgcagGTAGGGCGAGGAGGGAGCCAAATCCAAATCAGCAGCCATGGCGCAGATGCT
EST: gi|88570417|gb|CI661790.1|CI661790
EST:     CCTCCTCTCCCTTCCCGGAGAAGACGCCTCCCTCCGCCGATCACCACCCG                         GTAGGGCGAGGAGGGAGCCAAATCCAAATCAGCAGCCATGGCGCAGATGCT
genomic: CCTCCTCTCCCTTCCCGGAGAAGACGCCTCCCTCCGCCGATCACCACCCGgtaagcccag ... gggggcgcagGTAGGGCGAGGAGGGAGCCAAATCCAAATCAGCAGCCATGGCGCAGATGCT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGCTCCCCTTCTTCTTCTACTCTCCCCATCTCGGCTCTCGCCATCGCCATCCTCCTCTCCCTTCCCGGAGAAGACGCCTCCCTCCGCCGATCACCACCCGgtaagcccagtgtgcttaggctaagcgcactagagcttcttgctcgcttgcttcttctccgctcagatctgcttgcttgcttgcttcgctagaaccctactctgtgctgcgagtgtcgctgcttcgtcttccttcctcaagttcgatctgattgtgtgtgtgggggggcgcag

- - - - - - - - - - - - - - - - - - - - - - - - -  CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA