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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGTGTACTATTCCTCGTGCCAGCTTTACTCGCGCCACTGGATCATCCGATGGAGAGACCGGGTTGTTTCTGATGTGAACGGGGAAGGTGTTATTGGGAAGgtatgcgggaagcaagaagagcactccataaactatgtgtttttgcatgcacatatacatttcaaacgcaaagtatagttcatattctgcttggcatgttctgtgcag

Basic information

species Oryza sativa
transcript LOC_Os11g16390.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os11g16390.2 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G173354_T02 (Zea mays), 5'ss of exon 3
TGTGTACTATTCCTCGTGCCAGCTTTACTCGCGCCACTGGATCATCCGATGGAGAGACCGGGTTGTTTCTGATGTGAACGGGGAAGGTGTTATTGGGAAGgtatgcgggaagcaagaagagcactccataaactatgtgtttttgcatgcacatatacatttcaaacgcaaagtatagttcatat-tctgcttggcatgttctgtgcag
 ||||||||||| || |||||||||| ||| |||||||||| |||| ||| | | ||| |||||||||||||||||| ||| | ||| ||||||||  |||||| | ||     |  ||| |      |    |    |||  ||  |  |||  | | ||| ||| |  |    ||| | || |  ||| |   ||| |   ||||||
CGTGTACTATTCTTCCTGCCAGCTTTGCTCCCGCCACTGGACCATCAGATCGTGTGACAGGGTTGTTTCTGATGTGAGCGGAGGAGGGGTTATTGGAGAGgtatcctggggaggaacagaactagttttttttttcccgttactgact--acagtttcctttgaaaggtgat---taggtaatgtgcctgatcaacatatctcgtgcag
















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|29664981|gb|CB661256.1|CB661256
EST:     GGAGAGACCGGGTTGTTTCTGATGTGAACGGGGAAGGTGTTATTGGGAAG                         TACCCTCTACTAACTACAGGCCAGGAAGAGTTTGTGTATGAGAGTTGCACG
genomic: GGAGAGACCGGGTTGTTTCTGATGTGAACGGGGAAGGTGTTATTGGGAAGgtatgcggga ... ttctgtgcagTACCCTCTACTAACTACAGGCCAGGAAGAGTTTGTGTATGAGAGTTGCACG
EST: gi|29664982|gb|CB661257.1|CB661257
EST:     GGAGAGACCGGGTTGTTTCTGATGTGAACGGGGAAGGTGTTATTGGGAAG                         TACCCTCTACTAACTACAGGCCAGGAAGAGTTTGTGTATGAGAGTTGCACG
genomic: GGAGAGACCGGGTTGTTTCTGATGTGAACGGGGAAGGTGTTATTGGGAAGgtatgcggga ... ttctgtgcagTACCCTCTACTAACTACAGGCCAGGAAGAGTTTGTGTATGAGAGTTGCACG
EST: gi|8858290|gb|AU095608.1|AU095608
EST:     GGAGAGACCGGGTTGTTTCTGATGTGAACGGGGAAGGTGTTATTGGGAAG                         TACCCTCTACTAACTACAGGCCAGGAAGAGTTTGTGTATGAGAGTTGCACG
genomic: GGAGAGACCGGGTTGTTTCTGATGTGAACGGGGAAGGTGTTATTGGGAAGgtatgcggga ... ttctgtgcagTACCCTCTACTAACTACAGGCCAGGAAGAGTTTGTGTATGAGAGTTGCACG
EST: gi|29664979|gb|CB661254.1|CB661254
EST:     GGAGAGACCGGGTTGTTTCTGATGTGAACGGGGAAGGTGTTATTGGGAAG                         TACCCTCTACTAACTACAGGCCAGGAAGAGTTTGTGTATGAGAGTTGCACG
genomic: GGAGAGACCGGGTTGTTTCTGATGTGAACGGGGAAGGTGTTATTGGGAAGgtatgcggga ... ttctgtgcagTACCCTCTACTAACTACAGGCCAGGAAGAGTTTGTGTATGAGAGTTGCACG
EST: gi|29677579|gb|CB673854.1|CB673854
EST:     GGAGAGACCGGGTTGTTTCTGATGTGAACGGGGAAGGTGTTATTGGGAAG                         TACCCTCTACTAACTACAGGCCAGGAAGAGTTTGTGTATGAGAGTTGCACG
genomic: GGAGAGACCGGGTTGTTTCTGATGTGAACGGGGAAGGTGTTATTGGGAAGgtatgcggga ... ttctgtgcagTACCCTCTACTAACTACAGGCCAGGAAGAGTTTGTGTATGAGAGTTGCACG
EST: gi|29658842|gb|CB655117.1|CB655117
EST:     GGAGAGACCGGGTTGTTTCTGATGTGAACGGGGAAGGTGTTATTGGGAAG                         TACCCTCTACTAACTACAGGCCAGGAAGAGTTTGTGTATGAGAGTTGCACG
genomic: GGAGAGACCGGGTTGTTTCTGATGTGAACGGGGAAGGTGTTATTGGGAAGgtatgcggga ... ttctgtgcagTACCCTCTACTAACTACAGGCCAGGAAGAGTTTGTGTATGAGAGTTGCACG
EST: gi|29645119|gb|CB650126.1|CB650126
EST:     GGAGAGACCGGGTTGTTTCTGATGTGAACGGGGAAGGTGTTATTGGGAAG                         TACCCTCTACTAACTACAGGCCAGGAAGAGTTTGTGTATGAGAGTTGCACG
genomic: GGAGAGACCGGGTTGTTTCTGATGTGAACGGGGAAGGTGTTATTGGGAAGgtatgcggga ... ttctgtgcagTACCCTCTACTAACTACAGGCCAGGAAGAGTTTGTGTATGAGAGTTGCACG
EST: gi|13420665|gb|AU174755.1|AU174755
EST:     GGAGAGACCGGGTTGTTTNTGATGTGAACGGGGAAGGTGTTATTGGGAAG                         TACCCTCTACTAACTACAGGCCAGGAAGAGTTTGTGTATGAGAGTTGCACG
genomic: GGAGAGACCGGGTTGTTTCTGATGTGAACGGGGAAGGTGTTATTGGGAAGgtatgcggga ... ttctgtgcagTACCCTCTACTAACTACAGGCCAGGAAGAGTTTGTGTATGAGAGTTGCACG
EST: gi|29664980|gb|CB661255.1|CB661255
EST:     GGAGAGACCGGGTTGTTTCTGATGTGAACGGGGAAGGTGTTATTGGGAAG                         TACCCTCTACTAACTACAGGCCAGGAAGAGTTTGTGTATGAGAGTTGCACG
genomic: GGAGAGACCGGGTTGTTTCTGATGTGAACGGGGAAGGTGTTATTGGGAAGgtatgcggga ... ttctgtgcagTACCCTCTACTAACTACAGGCCAGGAAGAGTTTGTGTATGAGAGTTGCACG
EST: gi|5038982|gb|AU071092.1|AU071092
EST:     GGAGAGACCGGGTTGTTTCTGATGTGAACGGGGAAGGTGTTATTGGGAAG                         TACCCTCTACTAACTACAGGCCAGGAAGAGTTTGTGTATGAGAGTTGCACG
genomic: GGAGAGACCGGGTTGTTTCTGATGTGAACGGGGAAGGTGTTATTGGGAAGgtatgcggga ... ttctgtgcagTACCCTCTACTAACTACAGGCCAGGAAGAGTTTGTGTATGAGAGTTGCACG