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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGTGCCCGTCGCTTGCGGACCAGCTGAACGTGGACGCCTTCCTGGAGCAAGCTCGCTCCTACGACAAAGCTGCGTCAAACCCCGTCGGCTGGTACATCCGgtcagccaaacaaacatcttcttactccagctgctgctttaacttgctgctactgcttggtgagattaatttggtgtttgtcatatgcatatgtgtgtgtggtgcag

Basic information

species Oryza sativa
transcript LOC_Os01g73910.6
intron # 7
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|15855367|gb|BI808179.1|BI808179
EST:     CTCGCTCCTACGACATAAGCTGCGTCAAACCCC-TCGGCT-GTACATCCG                         GAACGGCTCAGACGAGAGAGCTGTCGCATCCTCT-CCGGTGGATGCGAGCC
genomic: CTCGCTCCTACGACA-AAGCTGCGTCAAACCCCGTCGGCTGGTACATCCGgtcagccaaa ... tgtggtgcagGAAC-GCTCAGACGAGAGAGCTGTCGCATCCTCTGCCGGT-GATGCGAGCC
EST: gi|88663499|gb|CI482607.1|CI482607
EST:     CTCGCTCCTACGACAAAGCTGCGTCAAACCCCGTCGGCT-GTAACATCCG                         GAACGCTCANACGAGAGAGCTGTCGCATCCTCTGCCGGTGATGCGAGCCC
genomic: CTCGCTCCTACGACAAAGCTGCGTCAAACCCCGTCGGCTGGT-ACATCCGgtcagccaaa ... tgtggtgcagGAACGCTCAGACGAGAGAGCTGTCGCATCCTCTGCCGGTGATGCGAGCCC
EST: gi|88205420|gb|CI205269.1|CI205269
EST:     GCTCGCTCCTACGGCAAAGCTGCGTCAAACCCCGTCGGCTGGTACATCCG                         GAACGCTCAGACGAGAGAGCTGTCGCATCCTCTGCCGGTGATGCGAGCCCG
genomic: GCTCGCTCCTACGACAAAGCTGCGTCAAACCCCGTCGGCTGGTACATCCGgtcagccaaa ... tgtggtgcagGAACGCTCAGACGAGAGAGCTGTCGCATCCTCTGCCGGTGATGCGAGCCCG
EST: gi|5004214|gb|AU069363.1|AU069363
EST:     GCTCGCTCCTACGACAAAGCTGCGTCAAACCCCGTCGGCTGGTACATCCG                         GAACGCTCAGACGAGAGAGCTGTCGCATNCCTCTGCCGGTGATGCGAGCCC
genomic: GCTCGCTCCTACGACAAAGCTGCGTCAAACCCCGTCGGCTGGTACATCCGgtcagccaaa ... tgtggtgcagGAACGCTCAGACGAGAGAGCTGTCGCAT-CCTCTGCCGGTGATGCGAGCCC
EST: gi|29689228|gb|CB685503.1|CB685503
EST:     GCTCGCTCCTACGACAAAGCTGCGTCAAACCCCGTCGGCTGGTACATCCG                         GAACGCTCAGACGAGAGAGCTGTCGCATCCTCTGCCGGTGATGCGAGCCCG
genomic: GCTCGCTCCTACGACAAAGCTGCGTCAAACCCCGTCGGCTGGTACATCCGgtcagccaaa ... tgtggtgcagGAACGCTCAGACGAGAGAGCTGTCGCATCCTCTGCCGGTGATGCGAGCCCG
EST: gi|88501897|gb|CI429403.1|CI429403
EST:     GCTCGCTCGTACGACAAAGCTGCGTCAAACCCCGTCGGCTNGTACATCCG                         GAGCGCTCAGACGAGAGAGCTGTCGCATCCTCTGCCGGTGATGCGAGCCCG
genomic: GCTCGCTCCTACGACAAAGCTGCGTCAAACCCCGTCGGCTGGTACATCCGgtcagccaaa ... tgtggtgcagGAACGCTCAGACGAGAGAGCTGTCGCATCCTCTGCCGGTGATGCGAGCCCG
EST: gi|86874683|gb|CI318242.1|CI318242
EST:     GCTCGCTCCTACAACAAATCTGCGTCAAACCCCGTCGGCT-TTACATCCG                         TAACGCTCAGACGAGAGAGCTGTCGCATCCTCTGCCGGTGATTCGAGCCCG
genomic: GCTCGCTCCTACGACAAAGCTGCGTCAAACCCCGTCGGCTGGTACATCCGgtcagccaaa ... tgtggtgcagGAACGCTCAGACGAGAGAGCTGTCGCATCCTCTGCCGGTGATGCGAGCCCG
EST: gi|13806001|gb|AU181305.1|AU181305
EST:     GCTCGCTCCTACGACAAAGCTGCGTCAAACCCCGTCGGCTGGTACATCCG                         GAACGCTCAGACGAGAGAGCTGTCGCATCCTCTGCCGGTGATGCGAGCCCG
genomic: GCTCGCTCCTACGACAAAGCTGCGTCAAACCCCGTCGGCTGGTACATCCGgtcagccaaa ... tgtggtgcagGAACGCTCAGACGAGAGAGCTGTCGCATCCTCTGCCGGTGATGCGAGCCCG
EST: gi|88508686|gb|CI436192.1|CI436192
EST:     GCTCGCTCCTACGACAAAGCTGCGTCAAACCCCGTCGGCTGGTACATCCG                         GAACGCTCAAACGAGAGAGCTNTCNCATCCTCTGCCGGTGATGCGAGCCCG
genomic: GCTCGCTCCTACGACAAAGCTGCGTCAAACCCCGTCGGCTGGTACATCCGgtcagccaaa ... tgtggtgcagGAACGCTCAGACGAGAGAGCTGTCGCATCCTCTGCCGGTGATGCGAGCCCG
EST: gi|14192203|gb|AU184414.1|AU184414
EST:     GCTCGCTCCTACGACAAAGCTGCGTCAAACCCCGTCGGCTGGTACATCCG                         GAACGCTCAGACGAGAGAGCTGTCGCATCCTCTGCCGGTGATGCGAGCCCG
genomic: GCTCGCTCCTACGACAAAGCTGCGTCAAACCCCGTCGGCTGGTACATCCGgtcagccaaa ... tgtggtgcagGAACGCTCAGACGAGAGAGCTGTCGCATCCTCTGCCGGTGATGCGAGCCCG
EST: gi|58687641|gb|CK076328.1|CK076328
EST:     GCTCGCTCCTACGACAAAGCTGCGTCAAACCCCGTCGGCTGGTACATCCG                         GAACGCTCAGACGAGAGAGCTGTCGCATCCTCTGCCGGTGATGCGAGCCCG
genomic: GCTCGCTCCTACGACAAAGCTGCGTCAAACCCCGTCGGCTGGTACATCCGgtcagccaaa ... tgtggtgcagGAACGCTCAGACGAGAGAGCTGTCGCATCCTCTGCCGGTGATGCGAGCCCG
EST: gi|86908523|gb|CI318907.1|CI318907
EST:     GCTCGCTCCTACGACAAAGCTGCGTCAAACCCCGTCGGCTGTTACATCCG                         GAACGCTCAGACGAGAGAGCTGTCGCATCCTCTGCCGGTGATTCGAGCCCG
genomic: GCTCGCTCCTACGACAAAGCTGCGTCAAACCCCGTCGGCTGGTACATCCGgtcagccaaa ... tgtggtgcagGAACGCTCAGACGAGAGAGCTGTCGCATCCTCTGCCGGTGATGCGAGCCCG
EST: gi|18388347|gb|BM421545.1|BM421545
EST:     GCTCGCTCCTACGACAAAGCTGCGTCAAACCCCGTCGGCTGGTACATCCG                         GAACGCTCAGACGAGAGAGCTGTCGCATCCTCTGCCGGTGATGCGAGCCCG
genomic: GCTCGCTCCTACGACAAAGCTGCGTCAAACCCCGTCGGCTGGTACATCCGgtcagccaaa ... tgtggtgcagGAACGCTCAGACGAGAGAGCTGTCGCATCCTCTGCCGGTGATGCGAGCCCG
EST: gi|4714855|gb|AU055972.1|AU055972
EST:     GCTCGCTCCTACGACAAAGCTGCGTCAAACCCCGTCGGCTGGTACATCCG                         GAACGCTCAGACGAGAGANCTGTCGCATCCTCTGCCGGTGATGCGAGCCCG
genomic: GCTCGCTCCTACGACAAAGCTGCGTCAAACCCCGTCGGCTGGTACATCCGgtcagccaaa ... tgtggtgcagGAACGCTCAGACGAGAGAGCTGTCGCATCCTCTGCCGGTGATGCGAGCCCG
EST: gi|86889395|gb|CI317195.1|CI317195
EST:     TCTCGCTCCTACGACAAAACTGCGTCAAACCCCGTCGGCTGGTACATCCG                         GAACGCTCAGACGAGAGAGCTGTCGCATCCTCTGCCGGTGATGCGAGCCCG
genomic: GCTCGCTCCTACGACAAAGCTGCGTCAAACCCCGTCGGCTGGTACATCCGgtcagccaaa ... tgtggtgcagGAACGCTCAGACGAGAGAGCTGTCGCATCCTCTGCCGGTGATGCGAGCCCG
EST: gi|86601574|gb|CI253902.1|CI253902
EST:     GCTCGCTCCTACGACAAAGCTGCGTCAAACCCCGTCGGCTGGTACATCCG                         GAACGCTCAGACGAGAGAGCTGTCGCATCCTCTGCCGGTGATGCGAGCCCG
genomic: GCTCGCTCCTACGACAAAGCTGCGTCAAACCCCGTCGGCTGGTACATCCGgtcagccaaa ... tgtggtgcagGAACGCTCAGACGAGAGAGCTGTCGCATCCTCTGCCGGTGATGCGAGCCCG
EST: gi|88293085|gb|CI512850.1|CI512850
EST:     GCTCGCTCCTACGACAAAGCTGCGTCAAACCCCGTCGGCTGGTACATCCG                         GAACGCTCAGACGAGAGAGCTGTCGCATCCTCTNCCGGTGATGCGAGCCCG
genomic: GCTCGCTCCTACGACAAAGCTGCGTCAAACCCCGTCGGCTGGTACATCCGgtcagccaaa ... tgtggtgcagGAACGCTCAGACGAGAGAGCTGTCGCATCCTCTGCCGGTGATGCGAGCCCG
EST: gi|88251679|gb|CI350107.1|CI350107
EST:     GCTCGCTCCTACGACAAAGCTGCGTCAAACCCCATCGGCTGGTACATCCG                         GAACGCTCAGACGAGAGAGCTTTCGCATCCTCTGCCGGTGATGCGAGCCCG
genomic: GCTCGCTCCTACGACAAAGCTGCGTCAAACCCCGTCGGCTGGTACATCCGgtcagccaaa ... tgtggtgcagGAACGCTCAGACGAGAGAGCTGTCGCATCCTCTGCCGGTGATGCGAGCCCG
EST: gi|58690986|gb|CK079673.1|CK079673
EST:     GCTCGCTCCTACGACAAAGCTGCGTCAAACCCCGTCGGCTGGTACATCCG                         GAACGCTCAGACGAGAGAGCTGTCGCATCCTCTGCCGGTGATGCGAGCCCG
genomic: GCTCGCTCCTACGACAAAGCTGCGTCAAACCCCGTCGGCTGGTACATCCGgtcagccaaa ... tgtggtgcagGAACGCTCAGACGAGAGAGCTGTCGCATCCTCTGCCGGTGATGCGAGCCCG
EST: gi|29624826|gb|CB629837.1|CB629837
EST:     GCTCGCTCCTACGACAAAGCTGCGTCAAACCCCGTCGGCTGGTACATCCG                         GAACGCTCAGACGAGAGAGCTGTCGCATCCTCTGCCGGTGATGCGAGCCCG
genomic: GCTCGCTCCTACGACAAAGCTGCGTCAAACCCCGTCGGCTGGTACATCCGgtcagccaaa ... tgtggtgcagGAACGCTCAGACGAGAGAGCTGTCGCATCCTCTGCCGGTGATGCGAGCCCG
EST: gi|88455032|gb|CI514273.1|CI514273
EST:     TACGACAAAGCTGCGTCAAACCCCGTCGGCTGGTACATCCG                         GAACGCTCAGACGAGAGAGCTGTCGCATCCTCTGCCGGTGATGCGAGCCCG
genomic: TACGACAAAGCTGCGTCAAACCCCGTCGGCTGGTACATCCGgtcagccaaa ... tgtggtgcagGAACGCTCAGACGAGAGAGCTGTCGCATCCTCTGCCGGTGATGCGAGCCCG
EST: gi|22305824|gb|BQ907046.1|BQ907046
EST:     GCTCGCTCCTACGACAAAGCTGCGTCAAACCCCGTCGGCTGGTACATCCG                         GAACGCTCAGACGAGAGAGCTGTCGCATCCTCTGCCGGTGATGCGAGCCCG
genomic: GCTCGCTCCTACGACAAAGCTGCGTCAAACCCCGTCGGCTGGTACATCCGgtcagccaaa ... tgtggtgcagGAACGCTCAGACGAGAGAGCTGTCGCATCCTCTGCCGGTGATGCGAGCCCG
EST: gi|86862554|gb|CI345593.1|CI345593
EST:     GCTCGCTCGTACGACAAAGCTGCGTCAAACCCCGTCGGCTGGTACATCCG                         GAACGCTCAGACGAGAGAGCTGTCGCATCCTCTGGCCGGTGATGCGAGCCC
genomic: GCTCGCTCCTACGACAAAGCTGCGTCAAACCCCGTCGGCTGGTACATCCGgtcagccaaa ... tgtggtgcagGAACGCTCAGACGAGAGAGCTGTCGCATCCTCT-GCCGGTGATGCGAGCCC
EST: gi|88515375|gb|CI443029.1|CI443029
EST:     ACGACAAAGCTGCGTCAAACCCCGTCGGCTGGTACATCCG                         GAACGCTCAGACGAGAGAGCTTTCGCATCCTCTGCCGGTGATGCGAGCCCG
genomic: ACGACAAAGCTGCGTCAAACCCCGTCGGCTGGTACATCCGgtcagccaaa ... tgtggtgcagGAACGCTCAGACGAGAGAGCTGTCGCATCCTCTGCCGGTGATGCGAGCCCG
EST: gi|14713999|gb|AU197940.1|AU197940
EST:     GCTCGCTCCTACGACAAAGCTGCGTCAAACCCCGTCGGCTGGTACATCCG                         GAACGCTCAGACGAGAGAGCTGTCGCATCCTCTGCCGGTGATGCGAGCCCG
genomic: GCTCGCTCCTACGACAAAGCTGCGTCAAACCCCGTCGGCTGGTACATCCGgtcagccaaa ... tgtggtgcagGAACGCTCAGACGAGAGAGCTGTCGCATCCTCTGCCGGTGATGCGAGCCCG
EST: gi|88459177|gb|CI514458.1|CI514458
EST:     AAGCTGCGTCAAACCCCGTCGGGTGGTACATCCG                         GAACGCTCAGACGAGAGAGCTGTCGCATCCTCTGCCGGTGATGCGAGCCCG
genomic: AAGCTGCGTCAAACCCCGTCGGCTGGTACATCCGgtcagccaaa ... tgtggtgcagGAACGCTCAGACGAGAGAGCTGTCGCATCCTCTGCCGGTGATGCGAGCCCG
EST: gi|13805990|gb|AU181299.1|AU181299
EST:     GCTCGCTCCTACGACAAAGCTGCGTCAAACCCCGTCGGCTGGTACATCCG                         GAACGCTCAGACGAGAGAGCTGTCGCATCCTCTGCCGGTGATGCGAGCCCG
genomic: GCTCGCTCCTACGACAAAGCTGCGTCAAACCCCGTCGGCTGGTACATCCGgtcagccaaa ... tgtggtgcagGAACGCTCAGACGAGAGAGCTGTCGCATCCTCTGCCGGTGATGCGAGCCCG
EST: gi|88452394|gb|CI555471.1|CI555471
EST:     GCTCGCTCCTACGACAAAGCTGCGTCAAACCCCGTCGGGTGGTACATCCG                         GAACGCTCAGACGAGAGAGCTGTCGCATCCTCTGCCGGTGATGCGAGCCCG
genomic: GCTCGCTCCTACGACAAAGCTGCGTCAAACCCCGTCGGCTGGTACATCCGgtcagccaaa ... tgtggtgcagGAACGCTCAGACGAGAGAGCTGTCGCATCCTCTGCCGGTGATGCGAGCCCG
EST: gi|88663188|gb|CI478952.1|CI478952
EST:     GCTCGCTCCTACGACAAAGCTGCGTCAAACCCCGTCGGCTGGTACATCCG                         GAACGCTCAGACGAGAGAGCTGTCGCATCCTCTGCCGGTGATGCGAGCCCG
genomic: GCTCGCTCCTACGACAAAGCTGCGTCAAACCCCGTCGGCTGGTACATCCGgtcagccaaa ... tgtggtgcagGAACGCTCAGACGAGAGAGCTGTCGCATCCTCTGCCGGTGATGCGAGCCCG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGTGCCCGTCGCTTGCGGACCAGCTGAACGTGGACGCCTTCCTGGAGCAAGCTCGCTCCTACGACAAAGCTGCGTCAAACCCCGTCGGCTGGTACATCCGgtcagccaaacaaacatcttcttactccagctgctgctttaacttgctgctactgcttggtgagattaatttggtgtttgtcatatgcatatgtgtgtgtggtgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGC