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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgtgctttgtgtaattgacgctgtgtgacttgcaatcggctcgcttgtgactgaatgaatacctgacgccgtgttggttttcagGCTGCGTGGGAGATCTTCACTCCGCTGCTGCACGACATCGACGACGGCAAGGTGAAGGCCCTGCCGTACAAGCCGGGAACCCGGGGACCCCCAGAGGCCG

Basic information

species Oryza sativa
transcript LOC_Os02g38840.1
intron # 15
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g38840.2 (Oryza sativa), 3'ss of exon 15
lower sequence: GRMZM2G031107_T02 (Zea mays), 3'ss of exon 15
gtttgtgctttgtgtaattgacgctgtgtgac--ttgcaatcggctcgcttgtgactgaatgaatacctgacgccgtgttggtt---ttcagGCTGCGTGGGAGATCTTCACTCCGCTGCTGCACGACATCGACGACGGCAAGGTGAAGGCCCTGCCGTACAAGCCGGGAACCCGGGGACCCCCAGAGGCCG
          | ||| | || |  ||  |  |  ||||| | ||||  ||||||| |      ||  |||||   ||||  |||    |||||| || ||||| |||||||||||  |||| ||||||||||| |  |||||| | | | || | |||||||||||||||||||| ||||| |  || ||||
---------gtttgtgactggccatgcatttcctttgcagt-ggcttccttgtgaatttgcttat-tctgacaatgtgtctgttggtctcagGCCGCATGGGAAATCTTCACTCCTTTGCTTCACGACATCGATGGTGGCAAGCTCAGGTCCGTTCCGTACAAGCCGGGAACCCGAGGACCGCAGGAAGCCG
















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|88219092|gb|CI220365.1|CI220365
EST:     GATAAGAGGGGATCAGCAGCACTTTGTTCGCCGAGACGAACTGAAG                         GCTGCGTGGGAGATCTTCACTCCGCTGCTGCACGACATCGACGACGGCAAG
genomic: GATAAGAGGGGATCAGCAGCACTTTGTTCGCCGAGACGAACTGAAGgtttgtgctt ... tggttttcagGCTGCGTGGGAGATCTTCACTCCGCTGCTGCACGACATCGACGACGGCAAG
EST: gi|86862356|gb|CI345349.1|CI345349
EST:     GATAAGAGGGGATCAGCAGCACTTTGTTCGCCGAGACGAACTGAAG                         GCTGCGTGGGAGATCTTCACTCCGCTGCTGCACGACATCGACGACGGCAAG
genomic: GATAAGAGGGGATCAGCAGCACTTTGTTCGCCGAGACGAACTGAAGgtttgtgctt ... tggttttcagGCTGCGTGGGAGATCTTCACTCCGCTGCTGCACGACATCGACGACGGCAAG
EST: gi|88273363|gb|CI388819.1|CI388819
EST:     GATAAGAGGGGATCAGCAGCACTTTGTTCGCCGAGACGAACTGAAG                         GCTGCGTGGGAGATCTTCACTCCGCTGCTGCACGACATCGACGACGGCAAG
genomic: GATAAGAGGGGATCAGCAGCACTTTGTTCGCCGAGACGAACTGAAGgtttgtgctt ... tggttttcagGCTGCGTGGGAGATCTTCACTCCGCTGCTGCACGACATCGACGACGGCAAG
EST: gi|88275573|gb|CI396177.1|CI396177
EST:     GATAAGAGGGGATCAGCAGCACTTTGTTCGCCGAGACGAACTGAAG                         GCTGCGTGGGAGATCTTCACTCCGCTGCTGCACGACATCGACGACGGCAAG
genomic: GATAAGAGGGGATCAGCAGCACTTTGTTCGCCGAGACGAACTGAAGgtttgtgctt ... tggttttcagGCTGCGTGGGAGATCTTCACTCCGCTGCTGCACGACATCGACGACGGCAAG
EST: gi|88245497|gb|CI245346.1|CI245346
EST:     GATAAGAGGGGATCAGCAGCACTTTGTTCGCCGAGACGAACTGAAG                         GCTGCGTGGGAGATCTTCACTCCGCTGCTGCACGACATCGACGACGGCAAG
genomic: GATAAGAGGGGATCAGCAGCACTTTGTTCGCCGAGACGAACTGAAGgtttgtgctt ... tggttttcagGCTGCGTGGGAGATCTTCACTCCGCTGCTGCACGACATCGACGACGGCAAG
EST: gi|88996866|gb|CI389532.1|CI389532
EST:     GATAAGAGGGGATCAGCAGCACTTTGTTCGCCGAGACGAACTGAAG                         GCTGCGTGGGAGATCTTCACTCCGCTGCTGCACGACATCGACGACGGCAAG
genomic: GATAAGAGGGGATCAGCAGCACTTTGTTCGCCGAGACGAACTGAAGgtttgtgctt ... tggttttcagGCTGCGTGGGAGATCTTCACTCCGCTGCTGCACGACATCGACGACGGCAAG
EST: gi|88518045|gb|CI445598.1|CI445598
EST:     GATAAGAGGGGATCAGCAGCACTTTGTTCGCCGAGACGAACTGAAG                         GCTGCGTGGGAGATCTTCACTCCGCTGCTGCACGACATCGACGACGGCAAG
genomic: GATAAGAGGGGATCAGCAGCACTTTGTTCGCCGAGACGAACTGAAGgtttgtgctt ... tggttttcagGCTGCGTGGGAGATCTTCACTCCGCTGCTGCACGACATCGACGACGGCAAG
EST: gi|86432491|gb|CI086102.1|CI086102
EST:     GATAAGAGGGGATCAGCAGCACTTTGTTCGCCGAGACGAACTGAAG                         GCTGCGTGGGAGATCTTCACTCCGCTGCTGCACGACATCGACGACGGCAAG
genomic: GATAAGAGGGGATCAGCAGCACTTTGTTCGCCGAGACGAACTGAAGgtttgtgctt ... tggttttcagGCTGCGTGGGAGATCTTCACTCCGCTGCTGCACGACATCGACGACGGCAAG
EST: gi|88472832|gb|CI410103.1|CI410103
EST:     GATAAGAGGGGATCAGCAGCACTTTGTTCGCCGAGACGAACTGAAG                         GCTGCGTGGGAGATCTTCACTCCGCTGCTGCACGACATCGACGACGGCAAG
genomic: GATAAGAGGGGATCAGCAGCACTTTGTTCGCCGAGACGAACTGAAGgtttgtgctt ... tggttttcagGCTGCGTGGGAGATCTTCACTCCGCTGCTGCACGACATCGACGACGGCAAG
EST: gi|89176067|gb|CI043088.1|CI043088
EST:     GATAAGAGGGGATCAGCAGCACTTTGTTCGCCGAGACGAACTGAAG                         GCTGCGTGGGAGATCTTCACTCCGCTGCTGCACGACATCGACGACGGCAAG
genomic: GATAAGAGGGGATCAGCAGCACTTTGTTCGCCGAGACGAACTGAAGgtttgtgctt ... tggttttcagGCTGCGTGGGAGATCTTCACTCCGCTGCTGCACGACATCGACGACGGCAAG
EST: gi|86843192|gb|CI341351.1|CI341351
EST:     GATAAGAGGGGATCAGCAGCACTTTGTTCGCCGAGACGAACTGAAG                         GCTGCGTGGGAGATCTTCACTCCGCTGCTGCACGACATCGACGACGGCAAG
genomic: GATAAGAGGGGATCAGCAGCACTTTGTTCGCCGAGACGAACTGAAGgtttgtgctt ... tggttttcagGCTGCGTGGGAGATCTTCACTCCGCTGCTGCACGACATCGACGACGGCAAG
EST: gi|88256221|gb|CI358609.1|CI358609
EST:     GATAAGAGGGGATCAGCAGCACTTTGTTCGCCGAGACGAACTGAAG                         GCTGCGTGGGAGATCTTCACTCCGCTGCTGCACGACATCGACGACGGCAAG
genomic: GATAAGAGGGGATCAGCAGCACTTTGTTCGCCGAGACGAACTGAAGgtttgtgctt ... tggttttcagGCTGCGTGGGAGATCTTCACTCCGCTGCTGCACGACATCGACGACGGCAAG
EST: gi|89180521|gb|CI044800.1|CI044800
EST:     GATAAGAGGGGATCAGCAGCACTTTGTTCGCCGAGACGAACTGAAG                         GCTGCGTGGGAGATCTTCACTCCGCTGCTGCACGACATCGACGACGGCAAG
genomic: GATAAGAGGGGATCAGCAGCACTTTGTTCGCCGAGACGAACTGAAGgtttgtgctt ... tggttttcagGCTGCGTGGGAGATCTTCACTCCGCTGCTGCACGACATCGACGACGGCAAG
EST: gi|88517913|gb|CI444802.1|CI444802
EST:     GATAAGAGGGGATCAGCAGCACTTTGTTCGCCGAGACGAACTGAAG                         GCTGCGTGGGAGATCTTCACTCCGCTGCTGCACGACATCGACGACGGCAAG
genomic: GATAAGAGGGGATCAGCAGCACTTTGTTCGCCGAGACGAACTGAAGgtttgtgctt ... tggttttcagGCTGCGTGGGAGATCTTCACTCCGCTGCTGCACGACATCGACGACGGCAAG
EST: gi|88237644|gb|CI237493.1|CI237493
EST:     GATAAGAGGGGATCAGCAGCACTTTGTTCGCCGAGACGAACTGAAG                         GCTGCGTGGGAGATCTTCACTCCGCTGCTGCACGACATCGACGACGGCAAG
genomic: GATAAGAGGGGATCAGCAGCACTTTGTTCGCCGAGACGAACTGAAGgtttgtgctt ... tggttttcagGCTGCGTGGGAGATCTTCACTCCGCTGCTGCACGACATCGACGACGGCAAG
EST: gi|86535002|gb|CI175208.1|CI175208
EST:     GATAAGAGGGGATCAGCAGCACTTTGTTCGCCGAGACGAACTGAAG                         GCTGCGTGGGAGATCTTCACTCCGCTGCTGCACGACATCGACGACGGCAAG
genomic: GATAAGAGGGGATCAGCAGCACTTTGTTCGCCGAGACGAACTGAAGgtttgtgctt ... tggttttcagGCTGCGTGGGAGATCTTCACTCCGCTGCTGCACGACATCGACGACGGCAAG
EST: gi|88376598|gb|CI537902.1|CI537902
EST:     GATAAGAGGGGATCAGCAGCACTTTGTTCGCCGAGACGAACTGAAG                         GCTGCGTGGGAGATCTTCACTCCGCTGCTGCACGACATCGACGACGGCAAG
genomic: GATAAGAGGGGATCAGCAGCACTTTGTTCGCCGAGACGAACTGAAGgtttgtgctt ... tggttttcagGCTGCGTGGGAGATCTTCACTCCGCTGCTGCACGACATCGACGACGGCAAG
EST: gi|88516425|gb|CI444079.1|CI444079
EST:     GATAAGAGGGGATCAGCAGCACTTTNTTCGCCGAGACGAACTGAAG                         GCTGCGTGGGAGATCTTCACTCCGCTGCTGCACGACATCGACGACGGCAAG
genomic: GATAAGAGGGGATCAGCAGCACTTTGTTCGCCGAGACGAACTGAAGgtttgtgctt ... tggttttcagGCTGCGTGGGAGATCTTCACTCCGCTGCTGCACGACATCGACGACGGCAAG
EST: gi|88262014|gb|CI365590.1|CI365590
EST:     GATAAGAGGGGATCACCAGCACTCTGTTCGCCGAGACGAACTGAAG                         GCTGCGTGGGAGATCTTCACTCCGCTGCTGCACGACATCGACGACGGCAAG
genomic: GATAAGAGGGGATCAGCAGCACTTTGTTCGCCGAGACGAACTGAAGgtttgtgctt ... tggttttcagGCTGCGTGGGAGATCTTCACTCCGCTGCTGCACGACATCGACGACGGCAAG
EST: gi|89192387|gb|CI049848.1|CI049848
EST:     GATAAGAGGGGATCAGCAGCACTTTGTTCGCCGAGACGAACTGAAG                         GCTGCGTGGGAGATCTTCACTCCGCTGCTGCACGACATCGACGACGGCAAG
genomic: GATAAGAGGGGATCAGCAGCACTTTGTTCGCCGAGACGAACTGAAGgtttgtgctt ... tggttttcagGCTGCGTGGGAGATCTTCACTCCGCTGCTGCACGACATCGACGACGGCAAG
EST: gi|88420370|gb|CI559616.1|CI559616
EST:     GATAAGAGGGGATCAGCAGCACTTTGTTCGCCGAGACGAACTGAAG                         GCTGCGTGGGAGATCTTCACTCCGCTGCTGCACGACATCGACGACGGCAAG
genomic: GATAAGAGGGGATCAGCAGCACTTTGTTCGCCGAGACGAACTGAAGgtttgtgctt ... tggttttcagGCTGCGTGGGAGATCTTCACTCCGCTGCTGCACGACATCGACGACGGCAAG
EST: gi|29616737|gb|CB621749.1|CB621749
EST:     GATAAGAGGGGATCAGCAGCACTTTGTTCGCCGAGACGAACTGAAG                         GCTGCGTGGGAGATCTTCACTCCGCTGCTGCACGACATCGACGACGGCAAG
genomic: GATAAGAGGGGATCAGCAGCACTTTGTTCGCCGAGACGAACTGAAGgtttgtgctt ... tggttttcagGCTGCGTGGGAGATCTTCACTCCGCTGCTGCACGACATCGACGACGGCAAG
EST: gi|89190198|gb|CI392248.1|CI392248
EST:     GATAAGAGGGGATCAGCAGCACTTTGTTCGCCGAGACGAACTGAAG                         GCTGCGTGGGAGATCTTCACTCCGCTGCTGCACGACATCGACGACGGCAAG
genomic: GATAAGAGGGGATCAGCAGCACTTTGTTCGCCGAGACGAACTGAAGgtttgtgctt ... tggttttcagGCTGCGTGGGAGATCTTCACTCCGCTGCTGCACGACATCGACGACGGCAAG
EST: gi|88845594|gb|CI084519.1|CI084519
EST:     GATAAGAGGGGATCAGCAGCACTTTGTTCGCCGAGACGAACTGAAG                         GCTGCGTGGGAGATCTTCACTCCGCTGCTGCACGACATCGACGACGGCAAG
genomic: GATAAGAGGGGATCAGCAGCACTTTGTTCGCCGAGACGAACTGAAGgtttgtgctt ... tggttttcagGCTGCGTGGGAGATCTTCACTCCGCTGCTGCACGACATCGACGACGGCAAG
EST: gi|88478723|gb|CI415994.1|CI415994
EST:     GATAAGAGGGGATCAGCAGCACTTTGTTCGCCGAGACGAACTGAAG                         GCTGCGTGGGAGATCTTCACTCCGCTGCTGCACGACATCGACGACGGCAAG
genomic: GATAAGAGGGGATCAGCAGCACTTTGTTCGCCGAGACGAACTGAAGgtttgtgctt ... tggttttcagGCTGCGTGGGAGATCTTCACTCCGCTGCTGCACGACATCGACGACGGCAAG
EST: gi|88409040|gb|CI556748.1|CI556748
EST:     GATAAGAGGGGATCAGCAGCACTTTGTTCGCCGAGACGAACTGAAG                         GCTGCGTGGGAGATCTTCACTCCGCTGCTGCACGACATCGACGACGGCAAG
genomic: GATAAGAGGGGATCAGCAGCACTTTGTTCGCCGAGACGAACTGAAGgtttgtgctt ... tggttttcagGCTGCGTGGGAGATCTTCACTCCGCTGCTGCACGACATCGACGACGGCAAG
EST: gi|89178707|gb|CI391705.1|CI391705
EST:     GATAAGAGGGGATCAGCAGCACTTTGTTCGCCGAGACGAACTGAAG                         GCTGCGTGGGAGATCTTCACTCCGCTGCTGCACGACATCGACGACGGCAAG
genomic: GATAAGAGGGGATCAGCAGCACTTTGTTCGCCGAGACGAACTGAAGgtttgtgctt ... tggttttcagGCTGCGTGGGAGATCTTCACTCCGCTGCTGCACGACATCGACGACGGCAAG
EST: gi|88257654|gb|CI360240.1|CI360240
EST:     GATAAGAGGGGATCAGCAGCACTTTGTTCGCCGAGACGAACTGAAG                         GCTGCGTGGGAGATCTTCACTCCGCTGCTGCACGACATCGACGACGGCAAG
genomic: GATAAGAGGGGATCAGCAGCACTTTGTTCGCCGAGACGAACTGAAGgtttgtgctt ... tggttttcagGCTGCGTGGGAGATCTTCACTCCGCTGCTGCACGACATCGACGACGGCAAG
EST: gi|218492006|gb|FG967745.1|FG967745
EST:     GATAAGAGGGGATCNGCAGCACTTTGTTCGCCGAGACGAACTGAAT                         GCTGCGTGGGAGATCTTCACTCCGATGCTGCACGACATCGAAGACGGCAAG
genomic: GATAAGAGGGGATCAGCAGCACTTTGTTCGCCGAGACGAACTGAAGgtttgtgctt ... tggttttcagGCTGCGTGGGAGATCTTCACTCCGCTGCTGCACGACATCGACGACGGCAAG
EST: gi|89177186|gb|CI043689.1|CI043689
EST:     GATAAGAGGGGATCAGCAGCACTTTGTTCGCCGAGACGAACTGAAG                         GCTGCGTGGGAGATCTTCACTCCGCTGCTGCACGACATCGACGACGGCAAG
genomic: GATAAGAGGGGATCAGCAGCACTTTGTTCGCCGAGACGAACTGAAGgtttgtgctt ... tggttttcagGCTGCGTGGGAGATCTTCACTCCGCTGCTGCACGACATCGACGACGGCAAG
EST: gi|88242908|gb|CI240759.1|CI240759
EST:     GATAAGAGGGGATCAGCAGCACTTTGTTCGCCGAGACGAACTGAAG                         GCTGCGTGGGAGATCTTCACTCCGCTGCTGCACGACATCGACGACGGCAAG
genomic: GATAAGAGGGGATCAGCAGCACTTTGTTCGCCGAGACGAACTGAAGgtttgtgctt ... tggttttcagGCTGCGTGGGAGATCTTCACTCCGCTGCTGCACGACATCGACGACGGCAAG
EST: gi|88447385|gb|CI544259.1|CI544259
EST:     GATAAGAGGGGATCAGCAGCACTTTGTTCGCCGAGACGAACTGAAG                         GCTGCGTGGGAGATCTTCACTCCGCTGCTGCACGACATCGACGACGGCAAG
genomic: GATAAGAGGGGATCAGCAGCACTTTGTTCGCCGAGACGAACTGAAGgtttgtgctt ... tggttttcagGCTGCGTGGGAGATCTTCACTCCGCTGCTGCACGACATCGACGACGGCAAG
EST: gi|88540877|gb|CI468953.1|CI468953
EST:     GATAAGAGGGGATCAGCAGCACTTTGTTCGCCGAGACGAACTGAAG                         GCTGCGTGGGAGATCTTCACTCCGCTGCTGCACGACATCGACGACGGCAAG
genomic: GATAAGAGGGGATCAGCAGCACTTTGTTCGCCGAGACGAACTGAAGgtttgtgctt ... tggttttcagGCTGCGTGGGAGATCTTCACTCCGCTGCTGCACGACATCGACGACGGCAAG
EST: gi|88537565|gb|CI466523.1|CI466523
EST:     GATAAGAGGGGATCAGCAGCACTTTGTTCGCCGAGACGAACTGAAG                         GCTGCGTGGGAGATCTTCACTCCGCTGCTGCACGACATCGACGACGGCAAG
genomic: GATAAGAGGGGATCAGCAGCACTTTGTTCGCCGAGACGAACTGAAGgtttgtgctt ... tggttttcagGCTGCGTGGGAGATCTTCACTCCGCTGCTGCACGACATCGACGACGGCAAG
EST: gi|88460847|gb|CI552983.1|CI552983
EST:     GATAAGAGGGGATCAGCAGCACTTTGTTCGCCGAGACGAACTGAAG                         GCTGCGTGGGAGATCTTCACTCCGCTGCTGCACGACATCGACGACGGCAAG
genomic: GATAAGAGGGGATCAGCAGCACTTTGTTCGCCGAGACGAACTGAAGgtttgtgctt ... tggttttcagGCTGCGTGGGAGATCTTCACTCCGCTGCTGCACGACATCGACGACGGCAAG
EST: gi|88487048|gb|CI424319.1|CI424319
EST:     GATAAGAGGGGATCAGCAGCACTTTGTTCGCCGAGACGAACTGAAG                         GCTGCGTGGGAGATCTTCACTCCGCTGCTGCACGACATCGACGACGGCAAG
genomic: GATAAGAGGGGATCAGCAGCACTTTGTTCGCCGAGACGAACTGAAGgtttgtgctt ... tggttttcagGCTGCGTGGGAGATCTTCACTCCGCTGCTGCACGACATCGACGACGGCAAG
EST: gi|88531486|gb|CI459965.1|CI459965
EST:     GATAAGAGGGGATCAGCAGCACTTTGTTCGCCGAGACGAACTGAAG                         GCTGCGTGGGAGATCTTCACTCCGCTGCTGCACGACATCGACGACGGCAAG
genomic: GATAAGAGGGGATCAGCAGCACTTTGTTCGCCGAGACGAACTGAAGgtttgtgctt ... tggttttcagGCTGCGTGGGAGATCTTCACTCCGCTGCTGCACGACATCGACGACGGCAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgcaatcggctcgcttgtgactgaatgaatacctgacgccgtgttggttttcagGCTGCGTGGGAGATCTTCACTCCGCTGCTGCACGACATCGACGACGGCAAGGTGAAGGCCCTGCCGTACAAGCCGGGAACCCGGGGACCCCCAGAGGCCG
                               acctgac  putative branch site (score: 3)
                                                ttttc  putative PPT
                        aatgaata  TA-rich tract