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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atacccatcataaagggacacttcttgatgcttattgagttatccttatccattgtactatggacaatgactattttacccacaattttgatttctacagGTGAAATGGCTGAACAAGCATCTCAGCAAACTCTGGCCTTTCGTTGATCAA

Basic information

species Oryza sativa
transcript LOC_Os07g22640.4
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os07g22640.4 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G092129_T02 (Zea mays), 3'ss of exon 2
-----ataccc-atcataaag--ggacacttcttgatgcttattgagttatcct-tatc-cattgtactatggacaatgactattttacccacaattttgatttctacagGTGAAATGGCTGAACAAGCATCTCAGCAAACTCTGGCCTTTCGTTGATCAA
     |||  |  | |||||   |   | || ||  ||| | |  |  ||| || || | ||| | ||| || | ||| | ||||| ||         || || || ||||| |||||| ||||||||||||| |||||||| |||||||| ||||   ||
acaaaatattctgtaataaaattgagaagttgttcctgcctctgaacatattctgtacctcatcggact-tgcagaattaatatttaac---------tgtttgctgcagGTTAAATGGTTGAACAAGCATCTGAGCAAACTTTGGCCTTTTGTTGTAGAA
















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|29655975|gb|CB652250.1|CB652250
EST:     TGTGCGGCGACAATTTCCCCGAGTGGATATCCTTCCCGCAGTATGAGCAG                         GTGAAATGGCTGAACAAGCATCTCAGCAAACTCTGGCCTTTCGTTGATCAA
genomic: TGTGCGGCGACAATTTCCCCGAGTGGATATCCTTCCCGCAGTATGAGCAGgtttgtggtg ... atttctacagGTGAAATGGCTGAACAAGCATCTCAGCAAACTCTGGCCTTTCGTTGATCAA
EST: gi|29624991|gb|CB630002.1|CB630002
EST:     TGTGCGGCGACAATTTCCCCGAGTGGATATCCTTCCCGCAGTATGAGCAG                         GTGAAATGGCTGAACAAGCATCTCAGCAAACTCTGGCCTTTCGTTGATCAA
genomic: TGTGCGGCGACAATTTCCCCGAGTGGATATCCTTCCCGCAGTATGAGCAGgtttgtggtg ... atttctacagGTGAAATGGCTGAACAAGCATCTCAGCAAACTCTGGCCTTTCGTTGATCAA
EST: gi|44674448|gb|CR287882.1|CR287882
EST:     TGTGCGGCGACAATTTCCCCGAGTGGATATCCTTCCCGCAGTATGAGCAG                         GTGAAATGGCTGAACAAGCATCTCAGCAAACTCTGGCCTTTCGTTGATCAA
genomic: TGTGCGGCGACAATTTCCCCGAGTGGATATCCTTCCCGCAGTATGAGCAGgtttgtggtg ... atttctacagGTGAAATGGCTGAACAAGCATCTCAGCAAACTCTGGCCTTTCGTTGATCAA
EST: gi|29630138|gb|CB635147.1|CB635147
EST:     TGTGCGGCGACAATTTCCCCGAGTGGATATCCTTCCCGCAGTATGAGCAG                         GTGAAATGGCTGAACAAGCATCTCAGCAAACTCTGGCCTTTCGTTGATCAA
genomic: TGTGCGGCGACAATTTCCCCGAGTGGATATCCTTCCCGCAGTATGAGCAGgtttgtggtg ... atttctacagGTGAAATGGCTGAACAAGCATCTCAGCAAACTCTGGCCTTTCGTTGATCAA
EST: gi|58606676|gb|CK034709.1|CK034709
EST:     TGTGCGGCGACAATTTCCCCGAGTGGATATCCTTCCCGCAGTATGAGCAG                         GTGAAATGGCTGAACAAGCATCTCAGCAAACTCTGGCCTTTCGTTGATCAA
genomic: TGTGCGGCGACAATTTCCCCGAGTGGATATCCTTCCCGCAGTATGAGCAGgtttgtggtg ... atttctacagGTGAAATGGCTGAACAAGCATCTCAGCAAACTCTGGCCTTTCGTTGATCAA
EST: gi|29662931|gb|CB659206.1|CB659206
EST:     TGTGCGGCGACAATTTCCCCGAGTGGATATCCTTCCCGCAGTATGAGCAG                         GTGAAATGGCTGAACAAGCATCTCAGCAAACTCTGGCCTTTCGTTGATCAA
genomic: TGTGCGGCGACAATTTCCCCGAGTGGATATCCTTCCCGCAGTATGAGCAGgtttgtggtg ... atttctacagGTGAAATGGCTGAACAAGCATCTCAGCAAACTCTGGCCTTTCGTTGATCAA
EST: gi|29624993|gb|CB630004.1|CB630004
EST:     TGTGCGGCGACAATTTCCCCGAGTGGATATCCTTCCCGCAATATGAGCAG                         GTGAAATGGCTGAACAAGCATCTCAGCAAACTCTGGCCTTTCGTTGATCAA
genomic: TGTGCGGCGACAATTTCCCCGAGTGGATATCCTTCCCGCAGTATGAGCAGgtttgtggtg ... atttctacagGTGAAATGGCTGAACAAGCATCTCAGCAAACTCTGGCCTTTCGTTGATCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttatccattgtactatggacaatgactattttacccacaattttgatttctacagGTGAAATGGCTGAACAAGCATCTCAGCAAACTCTGGCCTTTCGTTGATCAA
                                        ttttgat  putative branch site (score: 4)
                                              tttctac  CT-rich tract
                                      aattttgatttcta  TA-rich tract