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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTCTTGGTGCTACAATCAATGTGGCAAAGCCACCAAAGGGTTCGACGGTGGCGATATTTGGTCTAGGAGCTGTAGGCCTTGCTgtgagtgtctgaactcaccttgaatgttctcaattacaatgagagatccatctaattactctacatattgtctgattag

Basic information

species Oryza sativa
transcript LOC_Os11g10480.2
intron # 4
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|218487441|gb|FG970152.1|FG970152
EST:     CAAAGGGTTCGACGGTGGCGATATTTGGTCTAGGAGCTGTAGGCCTTGCT                         GCCGCAGAAGGTGCAAGGATTGCAGGAGCGTCAAGGATCATTGGCATTGAC
genomic: CAAAGGGTTCGACGGTGGCGATATTTGGTCTAGGAGCTGTAGGCCTTGCTgtgagtgtct ... gtctgattagGCCGCAGAAGGTGCAAGGATTGCAGGAGCGTCAAGGATCATTGGCATTGAC
EST: gi|286839|gb|D15646.1|D15646
EST:     CAAAGGGTTCGACGGTGGCGATATTTGGTCTAGGAGCTGTAGGCCTTGCT                         GCCGCAGAAGGTGCAAGGNTTGCAGGNGCGTCAAGGATCATNGGCATTGAC
genomic: CAAAGGGTTCGACGGTGGCGATATTTGGTCTAGGAGCTGTAGGCCTTGCTgtgagtgtct ... gtctgattagGCCGCAGAAGGTGCAAGGATTGCAGGAGCGTCAAGGATCATTGGCATTGAC
EST: gi|2443098|gb|C74869.1|C74869
EST:     CAAAGGGTTCGACGGTGGCGATATTTGGTCTAGGAGCTGTAGGCCTTGCT                         NCCGCAGAAGGTGCAAGGATTGCAGGAGCGTCAAGGATCATTGGCAT-GAC
genomic: CAAAGGGTTCGACGGTGGCGATATTTGGTCTAGGAGCTGTAGGCCTTGCTgtgagtgtct ... gtctgattagGCCGCAGAAGGTGCAAGGATTGCAGGAGCGTCAAGGATCATTGGCATTGAC
EST: gi|218502546|gb|FG960588.1|FG960588
EST:     CAAAGGGTTCGACGGTGGCGATATTTGGTCTAGGAGCTGTAGGCCTTGCT                         GCCGCAGAAGGTGCAAGGATTGCAGGAGCGTCAAGGATCATTGGCATTGAC
genomic: CAAAGGGTTCGACGGTGGCGATATTTGGTCTAGGAGCTGTAGGCCTTGCTgtgagtgtct ... gtctgattagGCCGCAGAAGGTGCAAGGATTGCAGGAGCGTCAAGGATCATTGGCATTGAC
EST: gi|218479934|gb|FG964885.1|FG964885
EST:     CAAAGGGTTCGACGGTGGCGATATTTGGTCTAGGAGCTGTAGGCCTTGCT                         GCCGCAGAAGGTGCAAGGATTGCAGGAGCGTCAAGGATCATTGGCATTGAC
genomic: CAAAGGGTTCGACGGTGGCGATATTTGGTCTAGGAGCTGTAGGCCTTGCTgtgagtgtct ... gtctgattagGCCGCAGAAGGTGCAAGGATTGCAGGAGCGTCAAGGATCATTGGCATTGAC
EST: gi|58661298|gb|CK049978.1|CK049978
EST:     CAAAGGGTTCGACGGTGGCGATATTTGGTCTAGGAGCTGTAGGCCTTGCT                         GCCGCAGAAGGTG
genomic: CAAAGGGTTCGACGGTGGCGATATTTGGTCTAGGAGCTGTAGGCCTTGCTgtgagtgtct ... gtctgattagGCCGCAGAAGGTG
EST: gi|58654478|gb|CK043158.1|CK043158
EST:     CAAAGGGTTCGACGGTGGCGATATTTGGTCTAGGAGCTGTAGGCCTTGCT                         GCCGCAGAAGGTGCAAGGATTGCAGGAGCGTCAAGGATCATTGGCATTGAC
genomic: CAAAGGGTTCGACGGTGGCGATATTTGGTCTAGGAGCTGTAGGCCTTGCTgtgagtgtct ... gtctgattagGCCGCAGAAGGTGCAAGGATTGCAGGAGCGTCAAGGATCATTGGCATTGAC
EST: gi|33691335|gb|CF319574.1|CF319574
EST:     CAAAGGGTTCGACGGTGGCGATATTTGGTCTAGGAGCTGTAGGCCTTGCT                         GCCGCAGAAGGTGCAAGGATTGCAGGAGCGTCAAGGATCATTGGCATTGGC
genomic: CAAAGGGTTCGACGGTGGCGATATTTGGTCTAGGAGCTGTAGGCCTTGCTgtgagtgtct ... gtctgattagGCCGCAGAAGGTGCAAGGATTGCAGGAGCGTCAAGGATCATTGGCATTGAC
EST: gi|163919826|gb|EG714396.1|EG714396
EST:     CAAAGGGTTCGACGGTGGCGATATTTGGTCTAGGAGCTGTAGGCCTTGTT                         GCCGCAGAAGGTGCAAGGATTGCAGGAGCGTCAAGGATCATT
genomic: CAAAGGGTTCGACGGTGGCGATATTTGGTCTAGGAGCTGTAGGCCTTGCTgtgagtgtct ... gtctgattagGCCGCAGAAGGTGCAAGGATTGCAGGAGCGTCAAGGATCATT
EST: gi|3760061|gb|C97319.1|C97319
EST:     CAAAGGGTTCGACGGTGGCGATATTTGGNCTAGGAGCTGTAGGCCTTGCT                         GCCGCAGAANGTGCAAGGATTGCAGGNAGCGTCAAGGATCATTGGCATTGA
genomic: CAAAGGGTTCGACGGTGGCGATATTTGGTCTAGGAGCTGTAGGCCTTGCTgtgagtgtct ... gtctgattagGCCGCAGAAGGTGCAAGGATTGCAGG-AGCGTCAAGGATCATTGGCATTGA
EST: gi|27577727|gb|CB000422.1|CB000422
EST:     CAAAGGGTTCGACGGTGGCGATATTTGGTCTAGGAGCTGTAGGCCTTGCT                         GCCGCAGAAGGTGCAAGGATTGCAGGAGCGTCAAGGATCATTGGCATTGAC
genomic: CAAAGGGTTCGACGGTGGCGATATTTGGTCTAGGAGCTGTAGGCCTTGCTgtgagtgtct ... gtctgattagGCCGCAGAAGGTGCAAGGATTGCAGGAGCGTCAAGGATCATTGGCATTGAC
EST: gi|56157717|gb|C25944.2|C25944
EST:     CAAAGGGTTCGACGGTGGCGATATTTGGTCTAGGAGCTGTAGGCCTTGCT                         GCCGCAGAAGGTGCAAGGATTGCAGGAGCGTCAAGGATCATTGGCATTGAC
genomic: CAAAGGGTTCGACGGTGGCGATATTTGGTCTAGGAGCTGTAGGCCTTGCTgtgagtgtct ... gtctgattagGCCGCAGAAGGTGCAAGGATTGCAGGAGCGTCAAGGATCATTGGCATTGAC
EST: gi|218490419|gb|FG953040.1|FG953040
EST:     CAAAGGGTTCGACGGTGGCGATATTTGGTCTAGGAGCTGTAGGCCTTGCT                         GCCGCAGAAGGTGCAAGGATTGCAGGAGCGTCAAGGATCAT
genomic: CAAAGGGTTCGACGGTGGCGATATTTGGTCTAGGAGCTGTAGGCCTTGCTgtgagtgtct ... gtctgattagGCCGCAGAAGGTGCAAGGATTGCAGGAGCGTCAAGGATCAT
EST: gi|29677131|gb|CB673406.1|CB673406
EST:     AGGAGCTGTAGGCCTTGCT                         GCCGCAGAAGGTGCAAGGATTGCAGGAGCGTCAAGGATCATTGGCATTGAC
genomic: AGGAGCTGTAGGCCTTGCTgtgagtgtct ... gtctgattagGCCGCAGAAGGTGCAAGGATTGCAGGAGCGTCAAGGATCATTGGCATTGAC
EST: gi|218503204|gb|FG964656.1|FG964656
EST:     CAAAGGGTTCGACGGTGGCGATATTTGGTCTAGGAGCTGTAGGCCTTGCT                         GCCGCAGAAGGTGCAAGGATTGCAGGAGCGTCAAGGATCATTGGCATTGAC
genomic: CAAAGGGTTCGACGGTGGCGATATTTGGTCTAGGAGCTGTAGGCCTTGCTgtgagtgtct ... gtctgattagGCCGCAGAAGGTGCAAGGATTGCAGGAGCGTCAAGGATCATTGGCATTGAC
EST: gi|218500844|gb|FG954985.1|FG954985
EST:     CAAAGGGTTCGACGGTGGCGATATTTGGTCTAGGAGCTGTAGGCCTTGCT                         GCCGCAGAAGGTGCAAGGATTGCAGGAGCGTCAAGGATCATTGGCATTGAC
genomic: CAAAGGGTTCGACGGTGGCGATATTTGGTCTAGGAGCTGTAGGCCTTGCTgtgagtgtct ... gtctgattagGCCGCAGAAGGTGCAAGGATTGCAGGAGCGTCAAGGATCATTGGCATTGAC
EST: gi|27577119|gb|CA999813.1|CA999813
EST:     TGTAGGCCTTGCT                         GCCGCAGAAGGTGCAAGGATTGCAGGAGCGTCAAGGATCATTGGCATTGAC
genomic: TGTAGGCCTTGCTgtgagtgtct ... gtctgattagGCCGCAGAAGGTGCAAGGATTGCAGGAGCGTCAAGGATCATTGGCATTGAC
EST: gi|58589153|gb|CF987461.1|CF987461
EST:     CAAAGGGTTCGACGGTGGCGATATTTGGTCTAGGAGCTGTAGGCCTTGCT                         GCCGCAGAAGGTGCAAGGATTGCAGGAGCGTCAAGGATCATTGGCATTGAC
genomic: CAAAGGGTTCGACGGTGGCGATATTTGGTCTAGGAGCTGTAGGCCTTGCTgtgagtgtct ... gtctgattagGCCGCAGAAGGTGCAAGGATTGCAGGAGCGTCAAGGATCATTGGCATTGAC
EST: gi|218489069|gb|FG948412.1|FG948412
EST:     CAAAGGGTTCGACGGTGGCGATATTTGGTCTATGAGCTGTAGGCCTTGCT                         GCCGCAGAAGGTGCAAGGATTGCAGGAGCGTCAAGGATCATTGGCATTGAC
genomic: CAAAGGGTTCGACGGTGGCGATATTTGGTCTAGGAGCTGTAGGCCTTGCTgtgagtgtct ... gtctgattagGCCGCAGAAGGTGCAAGGATTGCAGGAGCGTCAAGGATCATTGGCATTGAC
EST: gi|58688411|gb|CK077098.1|CK077098
EST:     CAAAGGGTTCGACGGTGGCGATATTTGGTCTAGGAGCTGTAGGCCTTGCT                         GCCGCAGAAGGTGCAAGGATTGCAGGAGCGTCAAGGATCATT
genomic: CAAAGGGTTCGACGGTGGCGATATTTGGTCTAGGAGCTGTAGGCCTTGCTgtgagtgtct ... gtctgattagGCCGCAGAAGGTGCAAGGATTGCAGGAGCGTCAAGGATCATT
EST: gi|33688339|gb|CF316578.1|CF316578
EST:     CAAAGGGTTCGACGGTGGCGATATTTGGTCTAGGAGCTGTAGGCCTTGCT                         GCTGCAGAAGGTGCAAGGATTGCAGGAGCGTCAAGGATCATTGGCATTGAC
genomic: CAAAGGGTTCGACGGTGGCGATATTTGGTCTAGGAGCTGTAGGCCTTGCTgtgagtgtct ... gtctgattagGCCGCAGAAGGTGCAAGGATTGCAGGAGCGTCAAGGATCATTGGCATTGAC
EST: gi|29677130|gb|CB673405.1|CB673405
EST:     CAAAGGGTTCGACGGTGGCGATATTTGGTCTACGAGCTGTAGGCCTTGCT                         GCCGCAGAAGGTGCAAGGATTGCAGGAGCGTCAAGGATCATTGGCATTGAC
genomic: CAAAGGGTTCGACGGTGGCGATATTTGGTCTAGGAGCTGTAGGCCTTGCTgtgagtgtct ... gtctgattagGCCGCAGAAGGTGCAAGGATTGCAGGAGCGTCAAGGATCATTGGCATTGAC
EST: gi|218500564|gb|FG950920.1|FG950920
EST:     CAAAGGGTTCGACGGTGGCGATATTTGGTCTAGGAGCTGTAGGCCTTGCT                         GCCGCAGAAGGTGCAAGGATTGCAGGAGCGTCAAGGATCATTGGCATTGAC
genomic: CAAAGGGTTCGACGGTGGCGATATTTGGTCTAGGAGCTGTAGGCCTTGCTgtgagtgtct ... gtctgattagGCCGCAGAAGGTGCAAGGATTGCAGGAGCGTCAAGGATCATTGGCATTGAC
EST: gi|218483939|gb|FG954486.1|FG954486
EST:     CAAAGGGTTCGACGGTGGCGATATTTGGTCTAGGAGCTGTAGGCCTTGCT                         GCCGCAGAAGGTGCAAGGATTGCAGGAGCGT
genomic: CAAAGGGTTCGACGGTGGCGATATTTGGTCTAGGAGCTGTAGGCCTTGCTgtgagtgtct ... gtctgattagGCCGCAGAAGGTGCAAGGATTGCAGGAGCGT
EST: gi|33802804|gb|CF327273.1|CF327273
EST:     CAAAGGGTTCGACGGTGGCGATATTTGGTCTAGGAGCTGTAGGCCTTGCT                         GCCGCAGAAGGTGCAAGGATTGCAGGAGCGTCAAGGATCATTGGCATTGAC
genomic: CAAAGGGTTCGACGGTGGCGATATTTGGTCTAGGAGCTGTAGGCCTTGCTgtgagtgtct ... gtctgattagGCCGCAGAAGGTGCAAGGATTGCAGGAGCGTCAAGGATCATTGGCATTGAC
EST: gi|33793396|gb|CF322579.1|CF322579
EST:     CAAAGGGTTCGACGGTGGCGATATTTGGTCTAGGAGCTGTAGGCCTTGCT                         GCCGCAGAAGGTGCAAGGATTGCAGGAGCGTCAAGGATCATTGGCATTGAC
genomic: CAAAGGGTTCGACGGTGGCGATATTTGGTCTAGGAGCTGTAGGCCTTGCTgtgagtgtct ... gtctgattagGCCGCAGAAGGTGCAAGGATTGCAGGAGCGTCAAGGATCATTGGCATTGAC
EST: gi|27554089|gb|CA997989.1|CA997989
EST:     CAAAGGGTTCGACGGTGGCGATATTTGGTCTAGGAGCTGTAGGCCTTGCT                         GCCGCAGAAGGTGCAAGGATTGCANGAGCGTCAAGGATCATTGGCATTGAC
genomic: CAAAGGGTTCGACGGTGGCGATATTTGGTCTAGGAGCTGTAGGCCTTGCTgtgagtgtct ... gtctgattagGCCGCAGAAGGTGCAAGGATTGCAGGAGCGTCAAGGATCATTGGCATTGAC
EST: gi|218491438|gb|FG947037.1|FG947037
EST:     CAAAGGGTTCGACGGTGGCGATATTTGGTCTAGGAGCTGTAGGCCTTGCT                         GCCGCAGAAGGTGCAAGGATTGCAGGAGCGTCAAGGATCATTGGCATTGAC
genomic: CAAAGGGTTCGACGGTGGCGATATTTGGTCTAGGAGCTGTAGGCCTTGCTgtgagtgtct ... gtctgattagGCCGCAGAAGGTGCAAGGATTGCAGGAGCGTCAAGGATCATTGGCATTGAC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTCTTGGTGCTACAATCAATGTGGCAAAGCCACCAAAGGGTTCGACGGTGGCGATATTTGGTCTAGGAGCTGTAGGCCTTGCTgtgagtgtctgaactcaccttgaatgttctcaattacaatgagagatccatctaattactctacatattgtctgattag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCT