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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGGGACGCACACTTGACGCCCACATCGAAGAACAGTTTGGCAGTGGGAGGTTGCTGGCCTGCATTTCTTCCCGCCCTGGGCAGTGTGGCCGAGCAGATGGgtaagattccaacactgaatgaacatcattgtaaattaggcttttctcacagtatatgtcagcatggaggtggcatgatctcgagtatgtcctggtttgc...

Basic information

species Oryza sativa
transcript LOC_Os02g28810.2
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|88536248|gb|CI465987.1|CI465987
EST:     TTGCTGGCCTGCATTTCTTCCCGCCCTGGGCAGTGTGGCCGAGCAGATGG                         CTATATCCTTGAGGGCAAAGAGCTGGAATTCTACATGAAGAAGCTCCAGAG
genomic: TTGCTGGCCTGCATTTCTTCCCGCCCTGGGCAGTGTGGCCGAGCAGATGGgtaagattcc ... ttccttgcagCTATATCCTTGAGGGCAAAGAGCTGGAATTCTACATGAAGAAGCTCCAGAG
EST: gi|88523600|gb|CI451442.1|CI451442
EST:     TTGCTGGCCTGCATTTCTTCCCGCCCTGGGCAGTGTGGCCGAGCAGATGG                         CTATATCCTTGAGGGCAAAGAGCTGGAATTCTACATGAAGAAGCTCCAGAG
genomic: TTGCTGGCCTGCATTTCTTCCCGCCCTGGGCAGTGTGGCCGAGCAGATGGgtaagattcc ... ttccttgcagCTATATCCTTGAGGGCAAAGAGCTGGAATTCTACATGAAGAAGCTCCAGAG
EST: gi|88374817|gb|CI520883.1|CI520883
EST:     TTGCTGGCCTGCATTTCTTCCCGCCCTGGGCAGTGTGGCCGAGCAGATGG                         CTATATCCTTGAGGGCAAAGAGCTGGAATTCTACATGAAGAAGCTCCAGAG
genomic: TTGCTGGCCTGCATTTCTTCCCGCCCTGGGCAGTGTGGCCGAGCAGATGGgtaagattcc ... ttccttgcagCTATATCCTTGAGGGCAAAGAGCTGGAATTCTACATGAAGAAGCTCCAGAG
EST: gi|55411402|gb|CV723778.1|CV723778
EST:     TTGCTGGCCTGCATTTCTTCCCGCCCTGGGCAGTGTGGCCGAGCAGATGG                         CTATATCCTTGAGGGCAAAGAGCTGGAATTCTACATGAAGAAGCTCCAGAG
genomic: TTGCTGGCCTGCATTTCTTCCCGCCCTGGGCAGTGTGGCCGAGCAGATGGgtaagattcc ... ttccttgcagCTATATCCTTGAGGGCAAAGAGCTGGAATTCTACATGAAGAAGCTCCAGAG
EST: gi|88505299|gb|CI432805.1|CI432805
EST:     TTGCTGGCCTGCATTTCTTCCCGCCCTGGGCAGTGTGGCCGAGCAGATGG                         CTATATCCTTGAGGGCAAAGAGCTGGAATTCTACATGAAGAAGCTCCAGAG
genomic: TTGCTGGCCTGCATTTCTTCCCGCCCTGGGCAGTGTGGCCGAGCAGATGGgtaagattcc ... ttccttgcagCTATATCCTTGAGGGCAAAGAGCTGGAATTCTACATGAAGAAGCTCCAGAG
EST: gi|88434782|gb|CI548979.1|CI548979
EST:     TTGCTGGCCTGCATTTCTTCCCGCCCTGGGCAGTGTGGCCGAGCAGATGG                         CTATATCCTTGAGGGCAAAGAGCTGGAATTCTACATGAAGAAGCTCCAGAG
genomic: TTGCTGGCCTGCATTTCTTCCCGCCCTGGGCAGTGTGGCCGAGCAGATGGgtaagattcc ... ttccttgcagCTATATCCTTGAGGGCAAAGAGCTGGAATTCTACATGAAGAAGCTCCAGAG
EST: gi|88289150|gb|CI553126.1|CI553126
EST:     TTGCTGGCCTGCATTTCTTCCCGCCCTGGGCAGTGTGGCCGAGCAGATGG                         CTATATCCTTGAGGGCAAAGAGCTGGAATTCTACATGAAGAAGCTCCAGAG
genomic: TTGCTGGCCTGCATTTCTTCCCGCCCTGGGCAGTGTGGCCGAGCAGATGGgtaagattcc ... ttccttgcagCTATATCCTTGAGGGCAAAGAGCTGGAATTCTACATGAAGAAGCTCCAGAG
EST: gi|88206140|gb|CI205989.1|CI205989
EST:     TTGCTGGCCTGCATTTCTTCCCGCCCTGGGCAGTGTGGCCGAGCAGATGG                         CTATATCCTTGAGGGCAAAGAGCTGGAATTCTACATGAAGAAGCTCCAGAG
genomic: TTGCTGGCCTGCATTTCTTCCCGCCCTGGGCAGTGTGGCCGAGCAGATGGgtaagattcc ... ttccttgcagCTATATCCTTGAGGGCAAAGAGCTGGAATTCTACATGAAGAAGCTCCAGAG
EST: gi|88212727|gb|CI212367.1|CI212367
EST:     TTGCTGGCCTGCATTTCTTCCCGCCCTGGGCAGTGTGGCCGAGCAGATGG                         CTATATCCTTGAGGGCAAAGAGCTGGAATTCTACATGAAGAAGCTCCAGAG
genomic: TTGCTGGCCTGCATTTCTTCCCGCCCTGGGCAGTGTGGCCGAGCAGATGGgtaagattcc ... ttccttgcagCTATATCCTTGAGGGCAAAGAGCTGGAATTCTACATGAAGAAGCTCCAGAG
EST: gi|88375056|gb|CI523321.1|CI523321
EST:     TTGCTGGCCTGCATTTCTTCCCGCCCTGGGCAGTGTGGCCGAGCAGATGG                         CTATATCCTTGAGGGCAAAGAGCTGGAATTCTACATGAAGAAGCTCCAGAG
genomic: TTGCTGGCCTGCATTTCTTCCCGCCCTGGGCAGTGTGGCCGAGCAGATGGgtaagattcc ... ttccttgcagCTATATCCTTGAGGGCAAAGAGCTGGAATTCTACATGAAGAAGCTCCAGAG
EST: gi|218491441|gb|FG947040.1|FG947040
EST:     TTGCTGGCCTGCATTTCTTCCCGCCCTGGGCAGTGTGGCCGAACAGATGG                         CTATATCCTTGAGGGCAAAGAGCT
genomic: TTGCTGGCCTGCATTTCTTCCCGCCCTGGGCAGTGTGGCCGAGCAGATGGgtaagattcc ... ttccttgcagCTATATCCTTGAGGGCAAAGAGCT
EST: gi|88518089|gb|CI445743.1|CI445743
EST:     TTGCTGGCCTGCATTTCTTCCCGCCCTGGGCAGTGTGGCCGAGCAGATGG                         CTATATCCTTGAGGGCAAAGAGCTGGAATTCTACATGAAGAAGCTCCAGAG
genomic: TTGCTGGCCTGCATTTCTTCCCGCCCTGGGCAGTGTGGCCGAGCAGATGGgtaagattcc ... ttccttgcagCTATATCCTTGAGGGCAAAGAGCTGGAATTCTACATGAAGAAGCTCCAGAG
EST: gi|88557821|gb|CI488258.1|CI488258
EST:     TTGCTGGCCTGCATTTCTTCCCGCCCTGGGCAGTGTGGCCGAGCAGATGG                         CTATATCCTTGAGGGCAAAGAGCTGGAATTCTACATGAAGAAGCTCCAGAG
genomic: TTGCTGGCCTGCATTTCTTCCCGCCCTGGGCAGTGTGGCCGAGCAGATGGgtaagattcc ... ttccttgcagCTATATCCTTGAGGGCAAAGAGCTGGAATTCTACATGAAGAAGCTCCAGAG
EST: gi|88508522|gb|CI436028.1|CI436028
EST:     TTGCTGGCCTGCATTTCTTCCCGCCCTGGGCAGTGTGGCCGAGCAGATGG                         CTATATCCTTGAGGGCAAAGAGCTGGAATTCTACATGAAGAAGCTCCAGAG
genomic: TTGCTGGCCTGCATTTCTTCCCGCCCTGGGCAGTGTGGCCGAGCAGATGGgtaagattcc ... ttccttgcagCTATATCCTTGAGGGCAAAGAGCTGGAATTCTACATGAAGAAGCTCCAGAG
EST: gi|86592532|gb|CI253213.1|CI253213
EST:     TTGCTGGCCTGCATTTCTTCCCGCCCTGGGCAGTGTGGCCGAGCAGATGG                         CTATATCCTTGAGGGCAAAGAGCTGGAATTCTACATGAAGAAGCTCCAGAG
genomic: TTGCTGGCCTGCATTTCTTCCCGCCCTGGGCAGTGTGGCCGAGCAGATGGgtaagattcc ... ttccttgcagCTATATCCTTGAGGGCAAAGAGCTGGAATTCTACATGAAGAAGCTCCAGAG
EST: gi|88518164|gb|CI445818.1|CI445818
EST:     TTGCTGGCCTGCATTTCTTCCCGCCCTGGGCAGTGTGGCCGAGCAGATGG                         CTATATCCTTGAGGGCAAAGAGCTGGAATTCTACATGAAGAAGCTCCAGAG
genomic: TTGCTGGCCTGCATTTCTTCCCGCCCTGGGCAGTGTGGCCGAGCAGATGGgtaagattcc ... ttccttgcagCTATATCCTTGAGGGCAAAGAGCTGGAATTCTACATGAAGAAGCTCCAGAG
EST: gi|88471326|gb|CI408597.1|CI408597
EST:     TTGCTGGCCTGCATTTCTTCCCGCCCTGGGCAGTGTGGCCGAGCAGATGG                         CTATATCCTTGAGGGCAAAGAGCTGGAATTCTACATGAAGAAGCTCCAGAG
genomic: TTGCTGGCCTGCATTTCTTCCCGCCCTGGGCAGTGTGGCCGAGCAGATGGgtaagattcc ... ttccttgcagCTATATCCTTGAGGGCAAAGAGCTGGAATTCTACATGAAGAAGCTCCAGAG
EST: gi|86528297|gb|CI168503.1|CI168503
EST:     TTGCTGGCCTGCATTTCTTCCCGCCCTGGGCAGTGTGGCCGAGCAGATGG                         CTATATCCTTGAGGGCAAAGAGCTGGAATTCTACATGAAGAAGCTCCAGAG
genomic: TTGCTGGCCTGCATTTCTTCCCGCCCTGGGCAGTGTGGCCGAGCAGATGGgtaagattcc ... ttccttgcagCTATATCCTTGAGGGCAAAGAGCTGGAATTCTACATGAAGAAGCTCCAGAG
EST: gi|55441585|gb|CV734116.1|CV734116
EST:     TTGCTGGCCTGCATTTCTTCCCGCCCTGGGCAGTGTGGCCGAGCAGATGG                         CTATATCCTTGAGGGCAAAGAGCTGGAATTCTACATGAAGAAGCTCCAGAG
genomic: TTGCTGGCCTGCATTTCTTCCCGCCCTGGGCAGTGTGGCCGAGCAGATGGgtaagattcc ... ttccttgcagCTATATCCTTGAGGGCAAAGAGCTGGAATTCTACATGAAGAAGCTCCAGAG
EST: gi|88411681|gb|CI521404.1|CI521404
EST:     TTGCTGGCCTGCATTTCTTCCCGCCCTGGGCAGTGTGGCCGAGCAGATGG                         CTATATCCTTGAGGGCAAAGAGCTGGAATTCTACATGAAGAAGCTCCAGAG
genomic: TTGCTGGCCTGCATTTCTTCCCGCCCTGGGCAGTGTGGCCGAGCAGATGGgtaagattcc ... ttccttgcagCTATATCCTTGAGGGCAAAGAGCTGGAATTCTACATGAAGAAGCTCCAGAG
EST: gi|58689688|gb|CK078375.1|CK078375
EST:     TTGCTGGCCTGCATTTCTTCCCGCCCTGGGCAGTGTGGCCGAGCAGATGG                         CTATATCCTTGAGGGCAAGGAGCTGGAATTCTACATGAAGAAGCTCCAGAG
genomic: TTGCTGGCCTGCATTTCTTCCCGCCCTGGGCAGTGTGGCCGAGCAGATGGgtaagattcc ... ttccttgcagCTATATCCTTGAGGGCAAAGAGCTGGAATTCTACATGAAGAAGCTCCAGAG
EST: gi|88473066|gb|CI410337.1|CI410337
EST:     TTGCTGGCCTGCATTTCTTCCCGCCCTGGGCAGTGTGGCCGAGCAGATGG                         CTATATCCTTGAGGGCAAAGAGCTGGAATTCTACATGAAGAAGCTCCAGAG
genomic: TTGCTGGCCTGCATTTCTTCCCGCCCTGGGCAGTGTGGCCGAGCAGATGGgtaagattcc ... ttccttgcagCTATATCCTTGAGGGCAAAGAGCTGGAATTCTACATGAAGAAGCTCCAGAG
EST: gi|88320553|gb|CI525495.1|CI525495
EST:     TTGCTGGCCTGCATTTCTTCCCGCCCTGGGCAGTGTGGCCGAGCAGATGG                         CTATATCCTTGAGGGCAAAGAGCTGGAATTCTACATGAAGAAGCTCCAGAG
genomic: TTGCTGGCCTGCATTTCTTCCCGCCCTGGGCAGTGTGGCCGAGCAGATGGgtaagattcc ... ttccttgcagCTATATCCTTGAGGGCAAAGAGCTGGAATTCTACATGAAGAAGCTCCAGAG
EST: gi|88446272|gb|CI563102.1|CI563102
EST:     TTGCTGGCCTGCATTTCTTCCCGCCCTGGGCAGTGTGGCCGAGCAGATGG                         CTATATCCTTGAGGGCAAAGAGCTGGAATTCTACATGAAGAAGCTCCAGAG
genomic: TTGCTGGCCTGCATTTCTTCCCGCCCTGGGCAGTGTGGCCGAGCAGATGGgtaagattcc ... ttccttgcagCTATATCCTTGAGGGCAAAGAGCTGGAATTCTACATGAAGAAGCTCCAGAG
EST: gi|88270081|gb|CI381379.1|CI381379
EST:     TTGCTGGCCTGCATTTCTTCCCGCCCTGGGCAGTGTGGCCGAGCAGATGG                         CTATATCCTTGAGGGCAAAGAGCTGGAATTCTACATGAAGAAGCTCCAGAG
genomic: TTGCTGGCCTGCATTTCTTCCCGCCCTGGGCAGTGTGGCCGAGCAGATGGgtaagattcc ... ttccttgcagCTATATCCTTGAGGGCAAAGAGCTGGAATTCTACATGAAGAAGCTCCAGAG
EST: gi|88322923|gb|CI548017.1|CI548017
EST:     TTGCTGGCCTGCATTTCTTCCCGCCCTGGGCAGTGTGGCCGAGCAGATGG                         CTATATCCTTGAGGGCAAAGAGCTGGAATTCTACATGAAGAAGCTCCAGAG
genomic: TTGCTGGCCTGCATTTCTTCCCGCCCTGGGCAGTGTGGCCGAGCAGATGGgtaagattcc ... ttccttgcagCTATATCCTTGAGGGCAAAGAGCTGGAATTCTACATGAAGAAGCTCCAGAG
EST: gi|33655298|gb|CF277912.1|CF277912
EST:     TTGCTGGCCTGCATTTCTTCCCGCCCTGGGCAGTGTGGCCGAGCAGATGG                         CTATATCCTTGAGGGCAAAGAGCTGGAATTCTACATGAAGAAGCTCCAGAG
genomic: TTGCTGGCCTGCATTTCTTCCCGCCCTGGGCAGTGTGGCCGAGCAGATGGgtaagattcc ... ttccttgcagCTATATCCTTGAGGGCAAAGAGCTGGAATTCTACATGAAGAAGCTCCAGAG
EST: gi|88216865|gb|CI216467.1|CI216467
EST:     TTGCTGGCCTGCATTTCTTCCCGCCCTGGGCAGTGTGGCCGAGCAGATGG                         CTATATCCTTGAGGGCAAAGAGCTGGAATTCTACATGAAGAAGCTCCAGAG
genomic: TTGCTGGCCTGCATTTCTTCCCGCCCTGGGCAGTGTGGCCGAGCAGATGGgtaagattcc ... ttccttgcagCTATATCCTTGAGGGCAAAGAGCTGGAATTCTACATGAAGAAGCTCCAGAG
EST: gi|88479272|gb|CI416543.1|CI416543
EST:     GGCCTGCATTTCTTCCCGCCCTGGGCAGTGTGGCCGAGCAGATGG                         CTATATCCTTGAGGGCAAAGAGCTGGAATTCTACATGAAGAAGCTCCAGAG
genomic: GGCCTGCATTTCTTCCCGCCCTGGGCAGTGTGGCCGAGCAGATGGgtaagattcc ... ttccttgcagCTATATCCTTGAGGGCAAAGAGCTGGAATTCTACATGAAGAAGCTCCAGAG
EST: gi|88489747|gb|CI427019.1|CI427019
EST:     TTGCTGGCCTGCATTTCTTCCCGCCCTGGGCAGTGTGGCCGAGCAGATGG                         CTATATCCTTGAGGGCAAAGAGCTGGAATTCTACATGAAGAAGCTCCAGAG
genomic: TTGCTGGCCTGCATTTCTTCCCGCCCTGGGCAGTGTGGCCGAGCAGATGGgtaagattcc ... ttccttgcagCTATATCCTTGAGGGCAAAGAGCTGGAATTCTACATGAAGAAGCTCCAGAG
EST: gi|88480304|gb|CI417575.1|CI417575
EST:     TTGCTGGCCTGCATTTCTTCCCGCCCTGGGCAGTGTGGCCGAGCAGATGG                         CTATATCCTTGAGGGCAAAGAGCTGGAATTCTACATGAAGAAGCTCCAGAG
genomic: TTGCTGGCCTGCATTTCTTCCCGCCCTGGGCAGTGTGGCCGAGCAGATGGgtaagattcc ... ttccttgcagCTATATCCTTGAGGGCAAAGAGCTGGAATTCTACATGAAGAAGCTCCAGAG
EST: gi|88962721|gb|CI023821.1|CI023821
EST:     TTGCTGGCCTGCATTTCTTCCCGCCCTGGGCAGTGTGGCCGAGCAGATGG                         CTATATCCTTGAGGGCAAAGAGCTGGAATTCTACATGAAGAAGCTCCAGAG
genomic: TTGCTGGCCTGCATTTCTTCCCGCCCTGGGCAGTGTGGCCGAGCAGATGGgtaagattcc ... ttccttgcagCTATATCCTTGAGGGCAAAGAGCTGGAATTCTACATGAAGAAGCTCCAGAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGGGACGCACACTTGACGCCCACATCGAAGAACAGTTTGGCAGTGGGAGGTTGCTGGCCTGCATTTCTTCCCGCCCTGGGCAGTGTGGCCGAGCAGATGGgtaagattccaacactgaatgaacatcattgtaaattaggcttttctcacagtatatgtcagcatggaggtggcatgatctcgagtatgtcctggtttgc

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGATG