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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTTGCCCTGTAGCCGCGTGCTCCGGCCATGGCGTTCTTCAGGGGCCTGACCGCGGTGTCGAGGCTTCGATCCCGCGTGgtgagccatccaacatcttgcatgcctattttctggcgatgcgtttgcatttatgtgcgctgaaaaattgttcgttgctttgtgttgtcag

Basic information

species Oryza sativa
transcript LOC_Os02g10070.2
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g10070.2 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G063909_T03 (Zea mays), 5'ss of exon 1
----------------------CTTGCCCTGTAGCCGCGTGCTCCGGCCATGGCGTTCTTCAGGGGCCTGACCGCGGTGTCGAGGCTTCGATCCCGCGTGgtgagccatc-caacatcttg-catgcctattttctggcgatgcgtttgcatttatgtgcgctgaaaaattgttcgttgctttgtgttgtcag-----------------------------
                      |  | |  |  |   |||  ||||||||||||||||||| ||||||| |||||||| ||||| || ||||||||| |||||||         |   ||| | | |        | | | ||||| ||   |   ||||  |||  |    ||  ||  | |     | | |                             
TTCCTTTCCTTGTTGGTAAGAGCAAGGCGAGACGTAACGTAATCCGGCCATGGCGTTCTTCCGGGGCCTCACCGCGGTCTCGAGACTGCGATCCCGCATGgtgagtagcggtggcgctttgtccttcacggccggtcgtgttgcgtgtgggctgtcgtgc--tgatgagccttttttttttctcccccgcccgactcccgtgctgttcgtacgtgttgccag

upper sequence: LOC_Os02g10070.2 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G063851_T02 (Zea mays), 5'ss of exon 2
CTTGCCCTG-TAGCCGCGTGCTCCGGCCATGGCGTTCTTCAGGGGCCTGACCGCGGTGTCGAGGCTTCGATCCCGCGTGgtgagccatccaacatcttgcatgcctattttctggcgatgcgtttgcatttatgtgcgctgaaaaattgttcgttgctttgtgttgtcag----------------------------
  |||  || |||||| | |||||||||||||||||||   ||||||| ||||| || ||||| || ||||| ||| |||||||   |||    |   |   ||   || |||     |  || || || ||||     | |    ||||  |     | ||| ||  |                             
-GTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTATCGGGGCCTCACCGCAGTCTCGAGACTGCGATCACGCATGgtgagtggtccg-tgtagcggtggcgctttgtcttcgtgtctgtgtgtatgtatgctgcttcaccggttgtgggggttgtcgtgctgatattttttccccgtgctgctcgtgttgccag

upper sequence: LOC_Os02g10070.2 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G064023_T01 (Zea mays), 5'ss of exon 3
-------CTTGCCCTG-TAGCCGCGTGCTCCGGCCATGGCGTTCTTCAGGGGCCTGACCGCGGTGTCGAGGCTTCGATCCCGCGTGgtgagccatccaacatcttgcatgcctattttctggcgatgcgtttgcatttatgtgcgctgaaaaattgttcgttgctttgtgttgtcag---------
         |||  || |||||| | ||||||||||||||||||||| ||||||| |||||||| |||||||| ||||||||| |||||||   |||        |  |  || | | ||    |   ||||       |||    |  | | || ||     || |||| |||  |         
CAGTGCAGGTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTTCCGGGGCCTCACCGCGGTCTCGAGGCTGCGATCCCGCATGgtgagtgttccgtttagcggtgtcgctttgtcct--tcaccggtttagggggctgtcgtgttgatattttttttcccctctgtgctgttcgtgttgccag

upper sequence: LOC_Os02g10070.2 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G064023_T04 (Zea mays), 5'ss of exon 2
----CTTGCCCTG-TAGCCGCGTGCTCCGGCCATGGCGTTCTTCAGGGGCCTGACCGCGGTGTCGAGGCTTCGATCCCGCGTGgtgagccatccaacatcttgcatgcctattttctggcgatgcgtttgcatttatgtgcgctgaaaaattgttcgttgctttgtgttgtcag---------
      |||  || |||||| | ||||||||||||||||||||| ||||||| |||||||| |||||||| ||||||||| |||||||   |||        |  |  || | | ||    |   ||||       |||    |  | | || ||     || |||| |||  |         
TGCAGGTGCGGTGGTAGCCGAGCGCTCCGGCCATGGCGTTCTTCCGGGGCCTCACCGCGGTCTCGAGGCTGCGATCCCGCATGgtgagtgttccgtttagcggtgtcgctttgtcct--tcaccggtttagggggctgtcgtgttgatattttttttcccctctgtgctgttcgtgttgccag

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|29614058|gb|CB619071.1|CB619071
EST:     TGGCGTTCTTCAGGGGCCTGACCGCGGTGTCGAGGCTTCGATCCCGCGTG                         GCACAGGAGGCCACCACGCTTGGTGGTGTGCGATGGCTGCAGATGCAGAGC
genomic: TGGCGTTCTTCAGGGGCCTGACCGCGGTGTCGAGGCTTCGATCCCGCGTGgtgagccatc ... gtgttgtcagGCACAGGAGGCCACCACGCTTGGTGGTGTGCGATGGCTGCAGATGCAGAGC
EST: gi|58693317|gb|CK082004.1|CK082004
EST:     TGGCGTTCTTCAGGGGCCTGACCGCGGTGTCGAGGCTTCGATCCCGCGTG                         GCACAGGAGGCCACCACGCTTGGTGGTGTGCGATGGCTGCAGATGCAGAGC
genomic: TGGCGTTCTTCAGGGGCCTGACCGCGGTGTCGAGGCTTCGATCCCGCGTGgtgagccatc ... gtgttgtcagGCACAGGAGGCCACCACGCTTGGTGGTGTGCGATGGCTGCAGATGCAGAGC
EST: gi|58658570|gb|CK047250.1|CK047250
EST:     TGGCGTTCTTCAGGGGCCTGACCGCGGTGTCGAGGCTTCGATCCCGCGTG                         GCACAGGAGGCCACCACGCTTGGTGGTGTGCGATGGCTGCAGATGCAGAGC
genomic: TGGCGTTCTTCAGGGGCCTGACCGCGGTGTCGAGGCTTCGATCCCGCGTGgtgagccatc ... gtgttgtcagGCACAGGAGGCCACCACGCTTGGTGGTGTGCGATGGCTGCAGATGCAGAGC
EST: gi|29667252|gb|CB663527.1|CB663527
EST:     TGGCGTTCTTCAGGGGCCTGACCGCGGTGTCGAGGCTTCGATCCCGCGTG                         GCACAGGAGGCCACCACGCTTGGTGGTGTGCGATGGCTGCAGATGCAGAGC
genomic: TGGCGTTCTTCAGGGGCCTGACCGCGGTGTCGAGGCTTCGATCCCGCGTGgtgagccatc ... gtgttgtcagGCACAGGAGGCCACCACGCTTGGTGGTGTGCGATGGCTGCAGATGCAGAGC
EST: gi|88400849|gb|CI616854.1|CI616854
EST:     TGGCGTTCTTCAGGGGCCTGACCGCGGTGTCGAGGCTTCGATCCCGCGTG                         GCACAGGAGGCCACCACGCTTGGTGGTGTGCGATGGCTGCAGATGCAGAGC
genomic: TGGCGTTCTTCAGGGGCCTGACCGCGGTGTCGAGGCTTCGATCCCGCGTGgtgagccatc ... gtgttgtcagGCACAGGAGGCCACCACGCTTGGTGGTGTGCGATGGCTGCAGATGCAGAGC
EST: gi|58678175|gb|CK066862.1|CK066862
EST:     GATCCCGCGTG                         GCACAGGAGGCCACCACGCTTGGTGGTGTGCGATGGCTGCAGATGCAGAGC
genomic: GATCCCGCGTGgtgagccatc ... gtgttgtcagGCACAGGAGGCCACCACGCTTGGTGGTGTGCGATGGCTGCAGATGCAGAGC
EST: gi|58611144|gb|CK038856.1|CK038856
EST:     TGGCGTTCTTCAGGGGCCTGACCGCGGTGTCGAGGCTTCGATCCCGCGTG                         GCACAGGAGGCCACCACGCTTGGTGGTGTGCGATGGCTGCAGATGCAGAGC
genomic: TGGCGTTCTTCAGGGGCCTGACCGCGGTGTCGAGGCTTCGATCCCGCGTGgtgagccatc ... gtgttgtcagGCACAGGAGGCCACCACGCTTGGTGGTGTGCGATGGCTGCAGATGCAGAGC
EST: gi|29614020|gb|CB619033.1|CB619033
EST:     TGGCGTTCTTCAGGGGCCTGACCGCGGTGTCGAGGCTTCGATCCCGCGTG                         GCACAGGAGGCCACCACGCTTGGTGGTGTGCGATGGCTGCAGATGCAGAGC
genomic: TGGCGTTCTTCAGGGGCCTGACCGCGGTGTCGAGGCTTCGATCCCGCGTGgtgagccatc ... gtgttgtcagGCACAGGAGGCCACCACGCTTGGTGGTGTGCGATGGCTGCAGATGCAGAGC
EST: gi|58695278|gb|CK083965.1|CK083965
EST:     TGGCGTTCTTCAGGGGCCTGACCGCGGTGTCGAGGCTTCGATCCCGCGTG                         GCACAGGAGGCCACCACGCTTGGTGGTGTGCGATGGCTGCAGATGCAGAGC
genomic: TGGCGTTCTTCAGGGGCCTGACCGCGGTGTCGAGGCTTCGATCCCGCGTGgtgagccatc ... gtgttgtcagGCACAGGAGGCCACCACGCTTGGTGGTGTGCGATGGCTGCAGATGCAGAGC
EST: gi|58690828|gb|CK079515.1|CK079515
EST:     GCGTTCTTCAGTGGTGCCTGACCGCGGTGTCGAGGCTTCGATCCCGCGTG                         GCACAGGAGGCCACCACGCTTGGTGGTGTGCGATGGCTGCAGATGCAGAGC
genomic: GCGTTCTTCAG-GG-GCCTGACCGCGGTGTCGAGGCTTCGATCCCGCGTGgtgagccatc ... gtgttgtcagGCACAGGAGGCCACCACGCTTGGTGGTGTGCGATGGCTGCAGATGCAGAGC