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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaactatcatctgccctcagatgagctttctatgcatccatttcctgaaattatgtgtatatataaactactcataaactattttaaatttctgcagACCTAGCTCTATCTGTTTCAAAGTTGAAGGACTTCACTGGAAGAGATAAGCCTACTGTCATAACATAAACATACCGGTGACATTAGCAATGTTACCACCT

Basic information

species Oryza sativa
transcript LOC_Os10g11140.1
intron # 21
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os10g11140.1 (Oryza sativa), 3'ss of exon 21
lower sequence: GRMZM2G025854_T02 (Zea mays), 3'ss of exon 21
gtaactatcatctgccctcagatgagctttctatgcatccatttcctgaaattatgtgtatatataaact-actcataaactattttaaatttctgcagACCTAGCTCTATCTGTTTCAAAGTTGAAGGACTTCACTGGAAGAGATAAGCCTACTGTCATAACATAAACATACCGGTGACATTAGCAATGTTACCACCT----
|| |||||| | ||| ||   |||   ||| | |  || ||  |  ||||||||| |  ||    | ||| | || |  |  ||||  |||    |||||||| ||| | |||||||| ||| | ||||||||||| |||||||| || |||||||||||||||||  |   | | |    |  ||  | ||  || ||    
gttactatcttgtgctcttccatggaattttt-tatattcaactt-tgaaattatttacatgccaatacttaatctttgataatttctaat----gcagACCTGGCTTTGTCTGTTTCGAAGCTCAAGGACTTCACAGGAAGAGAGAAACCTACTGTCATAACATAGGCC--CTGTTTGTTTCGGC--TTTTGGCAGCTTCTG

upper sequence: LOC_Os10g11140.1 (Oryza sativa), 3'ss of exon 21
lower sequence: GRMZM2G025854_T01 (Zea mays), 3'ss of exon 21
gtaactatcatctgccctcagatgagctttctatgcatccatttcctgaaattatgtgtatatataaact-actcataaactattttaaatttctgcagACCTAGCTCTATCTGTTTCAAAGTTGAAGGACTTCACTGGAAGAGATAAGCCTACTGTCATAACATAAACATACCGGTGACATTAGCAATGTTACCACCT
|| |||||| | ||| ||   |||   ||| | |  || ||  |  ||||||||| |  ||    | ||| | || |  |  ||||  |||    |||||||| ||| | |||||||| ||| | ||||||||||| |||||||| || ||||||||||||||||                                  
gttactatcttgtgctcttccatggaattttt-tatattcaactt-tgaaattatttacatgccaatacttaatctttgataatttctaat----gcagACCTGGCTTTGTCTGTTTCGAAGCTCAAGGACTTCACAGGAAGAGAGAAACCTACTGTCATAACAT----------------------------------
















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|88550260|gb|CI480220.1|CI480220
EST:     TGCCTCAAAGCATGATCTGGATGCACAAATAGCTTTGAAGCCTTTAATAG                         ACCTAGCTCTATCTGTTTCAAAGTTGAAGGACTTCACTGGAAGAGATAAGC
genomic: TGCCTCAAAGCATGATCTGGATGCACAAATAGCTTTGAAGCCTTTAATAGgtaactatca ... atttctgcagACCTAGCTCTATCTGTTTCAAAGTTGAAGGACTTCACTGGAAGAGATAAGC
EST: gi|88533939|gb|CI462615.1|CI462615
EST:     TGCCTCAAAGCATGATCTGGATGCACAAATAGCTTTGAAGCCTTTAATAG                         ACCTAGCTCTATCTGTTTCAAAGTTGAAGGACTTCACTGGAAGAGATAAGC
genomic: TGCCTCAAAGCATGATCTGGATGCACAAATAGCTTTGAAGCCTTTAATAGgtaactatca ... atttctgcagACCTAGCTCTATCTGTTTCAAAGTTGAAGGACTTCACTGGAAGAGATAAGC
EST: gi|88289914|gb|CI525246.1|CI525246
EST:     TGCCTCAAAGCATGATCTGGATGCACAAATAGCTTTGAAGCCTTTAATAG                         ACCTAGCTCTATCTGTTTCAAAGTTGAAGGACTTCACTGGAAGAGATAAGC
genomic: TGCCTCAAAGCATGATCTGGATGCACAAATAGCTTTGAAGCCTTTAATAGgtaactatca ... atttctgcagACCTAGCTCTATCTGTTTCAAAGTTGAAGGACTTCACTGGAAGAGATAAGC
EST: gi|88520701|gb|CI448355.1|CI448355
EST:     TGCCTCAAAGCATGATCTGGATGCACAAATAGCTTTGAAGCCTTTAATAG                         ACCTAGCTCTATCTGTTTCAAAGTTGAAGGACTTCACTGGAAGAGATAAGC
genomic: TGCCTCAAAGCATGATCTGGATGCACAAATAGCTTTGAAGCCTTTAATAGgtaactatca ... atttctgcagACCTAGCTCTATCTGTTTCAAAGTTGAAGGACTTCACTGGAAGAGATAAGC
EST: gi|88320906|gb|CI528058.1|CI528058
EST:     TGCCTCAAAGCATGATCTGGATGCACAAATAGCTTTGAAGCCTTTAATAG                         ACCTAGCTCTATCTGTTTCAAAGTTGAAGGACTTCACTGGAAGAGATAAGC
genomic: TGCCTCAAAGCATGATCTGGATGCACAAATAGCTTTGAAGCCTTTAATAGgtaactatca ... atttctgcagACCTAGCTCTATCTGTTTCAAAGTTGAAGGACTTCACTGGAAGAGATAAGC
EST: gi|89198777|gb|CI003514.1|CI003514
EST:     TGCCTCAAAGCATGATCTGGATGCACAAATAGCTTTGAAGCCTTTAATAG                         ACCTAGCTCTATCTGTTTCAAAGTTGAAGGACTTCACTGGAAGAGATAAGC
genomic: TGCCTCAAAGCATGATCTGGATGCACAAATAGCTTTGAAGCCTTTAATAGgtaactatca ... atttctgcagACCTAGCTCTATCTGTTTCAAAGTTGAAGGACTTCACTGGAAGAGATAAGC
EST: gi|24468665|gb|CA305614.1|CA305614
EST:     TGCCTCAAAGCATGATCTGGATGCACAAATAGCTTTGAAGCCTTTAATAG                         ACCTAGCTCTATCTGTTTCAAAGTTGAAGGACTTCACTGGAAGAGATAAGC
genomic: TGCCTCAAAGCATGATCTGGATGCACAAATAGCTTTGAAGCCTTTAATAGgtaactatca ... atttctgcagACCTAGCTCTATCTGTTTCAAAGTTGAAGGACTTCACTGGAAGAGATAAGC
EST: gi|88536100|gb|CI465824.1|CI465824
EST:     GCCTCAAAGCATGATCTGGATGCACAAATAGGCTTTGAAGCCTTTAATAG                         ACCTAGCTCTATCTGTTTCAAANTTGAAGGACTTCACTGGAAGAGATAAGC
genomic: GCCTCAAAGCATGATCTGGATGCACAAATA-GCTTTGAAGCCTTTAATAGgtaactatca ... atttctgcagACCTAGCTCTATCTGTTTCAAAGTTGAAGGACTTCACTGGAAGAGATAAGC
EST: gi|88473043|gb|CI410314.1|CI410314
EST:     TGCCTCAAAGCATGATGTGGATGCACAAATAGCTTTGAAGCCTTTAATAG                         ACCTAGCTCTATCTGTTTCAAAGTTGAAGGACTTCACTGGAAGAGATAAGC
genomic: TGCCTCAAAGCATGATCTGGATGCACAAATAGCTTTGAAGCCTTTAATAGgtaactatca ... atttctgcagACCTAGCTCTATCTGTTTCAAAGTTGAAGGACTTCACTGGAAGAGATAAGC
EST: gi|89175752|gb|CI042773.1|CI042773
EST:     CATGATCTGGATGCACAAATAGCTTTGAAGCCTTTAATAG                         ACCTAGCTCTATCTGTTTCAAAGTTGAAGGACTTCACTGGAAGAGATAAGC
genomic: CATGATCTGGATGCACAAATAGCTTTGAAGCCTTTAATAGgtaactatca ... atttctgcagACCTAGCTCTATCTGTTTCAAAGTTGAAGGACTTCACTGGAAGAGATAAGC
EST: gi|88512708|gb|CI440214.1|CI440214
EST:     TGCCTCAAAGCATGATCTGGATGCACAAATAGCTTTGAAGCCTTTAATAG                         ACCTAGCTCTATCTGTTTCAAAGTTGAAGGACTTCACTGGAAGAGATAAGC
genomic: TGCCTCAAAGCATGATCTGGATGCACAAATAGCTTTGAAGCCTTTAATAGgtaactatca ... atttctgcagACCTAGCTCTATCTGTTTCAAAGTTGAAGGACTTCACTGGAAGAGATAAGC
EST: gi|88476710|gb|CI413981.1|CI413981
EST:     TGCCTCAAAGCATGATCTGGATGCACAAATAGCTTTGAAGCCTTTAATAG                         ACCTAGCTCTATCTGTTTCAAAGTTGAAGGACTTCACTGGAAGAGATAAGC
genomic: TGCCTCAAAGCATGATCTGGATGCACAAATAGCTTTGAAGCCTTTAATAGgtaactatca ... atttctgcagACCTAGCTCTATCTGTTTCAAAGTTGAAGGACTTCACTGGAAGAGATAAGC
EST: gi|88514329|gb|CI441835.1|CI441835
EST:     TGCCTCAAAGCATGATCTGGATGCACAAATAGCTTTGAAGCCTTTGATAG                         ACCTAGCTCTATCTGTTTCAAAGTTGAAGGACTTCACTGGAAGAGATAAGC
genomic: TGCCTCAAAGCATGATCTGGATGCACAAATAGCTTTGAAGCCTTTAATAGgtaactatca ... atttctgcagACCTAGCTCTATCTGTTTCAAAGTTGAAGGACTTCACTGGAAGAGATAAGC
EST: gi|88504112|gb|CI431618.1|CI431618
EST:     TGCCTCAAAGCATGATCTGGATGCACAAATAGCTTTGAAGCCTTTAATAG                         ACCTAGCTCTATCTGTTTCAAAGTTGAAGGACTTCACTGGAAGAGATAAGC
genomic: TGCCTCAAAGCATGATCTGGATGCACAAATAGCTTTGAAGCCTTTAATAGgtaactatca ... atttctgcagACCTAGCTCTATCTGTTTCAAAGTTGAAGGACTTCACTGGAAGAGATAAGC
EST: gi|88380410|gb|CI518780.1|CI518780
EST:     TGCCTCAAAGCATGATCTGGATGCACAAATAGCTTTGAAGCCTTTAATAG                         ACCTAGCTCTATCTGTTTCAAAGTTGAAGGACTTCAGTGGAAGAGATAAGC
genomic: TGCCTCAAAGCATGATCTGGATGCACAAATAGCTTTGAAGCCTTTAATAGgtaactatca ... atttctgcagACCTAGCTCTATCTGTTTCAAAGTTGAAGGACTTCACTGGAAGAGATAAGC
EST: gi|24468739|gb|CA305688.1|CA305688
EST:     TGCCTCAAAGCATGATCTGGATGCACAAATAGCTTTGAAGCCTTTAATAG                         ACCTAGCTCTATCTGTTTCAAAGTTGAAGGACTTCACTGGAAGAGATAAGC
genomic: TGCCTCAAAGCATGATCTGGATGCACAAATAGCTTTGAAGCCTTTAATAGgtaactatca ... atttctgcagACCTAGCTCTATCTGTTTCAAAGTTGAAGGACTTCACTGGAAGAGATAAGC
EST: gi|88538232|gb|CI467245.1|CI467245
EST:     TGCCTCAAAGCATGATCTGGATGCACAAATAGCTTTGAAGCCTTTAATAG                         ACCTAGCTCTATCTGTTTCAAAGTTGAAGGACTTCACTGGAAGAGATAAGC
genomic: TGCCTCAAAGCATGATCTGGATGCACAAATAGCTTTGAAGCCTTTAATAGgtaactatca ... atttctgcagACCTAGCTCTATCTGTTTCAAAGTTGAAGGACTTCACTGGAAGAGATAAGC
EST: gi|88320873|gb|CI528025.1|CI528025
EST:     TGCCTCAAAGCATTATCTGGATGCACAAATAGCTTTGAAGCCTTTAATAG                         ACCTAGCTCTATCTGTTTCAAAGTTGAAGGACTTCACTGGAAGAGATAAGC
genomic: TGCCTCAAAGCATGATCTGGATGCACAAATAGCTTTGAAGCCTTTAATAGgtaactatca ... atttctgcagACCTAGCTCTATCTGTTTCAAAGTTGAAGGACTTCACTGGAAGAGATAAGC
EST: gi|88849912|gb|CI001618.1|CI001618
EST:     TGCCTCAAAGCATGATCTGGATGCACAAATAGCTTTGAAGCCTTTAATAG                         ACCTAGCTCTATCTGTTTCAAAGTTGAAGGACTTCACTGGAAGAGATAAGC
genomic: TGCCTCAAAGCATGATCTGGATGCACAAATAGCTTTGAAGCCTTTAATAGgtaactatca ... atttctgcagACCTAGCTCTATCTGTTTCAAAGTTGAAGGACTTCACTGGAAGAGATAAGC
EST: gi|44665107|gb|CR278541.1|CR278541
EST:     TGCCTCAAAGCATGATCTGGATGCACAAATAGCTTTGAAGCCTTTAATAG                         ACCTAGCTCTATCTGTTTCAAAGTTGAAGGACTTCACTGGAAGAGATAAGC
genomic: TGCCTCAAAGCATGATCTGGATGCACAAATAGCTTTGAAGCCTTTAATAGgtaactatca ... atttctgcagACCTAGCTCTATCTGTTTCAAAGTTGAAGGACTTCACTGGAAGAGATAAGC
EST: gi|86892654|gb|CI312043.1|CI312043
EST:     TGCCTCAAAGCATGATCTGGATGCACAAATAGCTTTGAAGCCTTTAATAG                         ACCTAGCTCTATCTGTTTCAAAGTTGAAGGACTTCACTGGAAGAGATAAGC
genomic: TGCCTCAAAGCATGATCTGGATGCACAAATAGCTTTGAAGCCTTTAATAGgtaactatca ... atttctgcagACCTAGCTCTATCTGTTTCAAAGTTGAAGGACTTCACTGGAAGAGATAAGC
EST: gi|88531137|gb|CI459588.1|CI459588
EST:     TGCCTCAAAGCATGATCTGGATGCACAAATAGCTTTGAAGCCTTTAATAG                         ACCTAGCTCTATCTGTTTCAAAGTTGAAGGACTTCACTGGAAGAGATAAGC
genomic: TGCCTCAAAGCATGATCTGGATGCACAAATAGCTTTGAAGCCTTTAATAGgtaactatca ... atttctgcagACCTAGCTCTATCTGTTTCAAAGTTGAAGGACTTCACTGGAAGAGATAAGC
EST: gi|88966651|gb|CI365874.1|CI365874
EST:     TGCCTCAAAGCATGATCTGGATGCACAAATAGCTTTGAAGCCTTTAATAG                         ACCTAGCTCTATCTGTTTCAAAGTTGAAGGACTTCACTGGAAGAGATAAGC
genomic: TGCCTCAAAGCATGATCTGGATGCACAAATAGCTTTGAAGCCTTTAATAGgtaactatca ... atttctgcagACCTAGCTCTATCTGTTTCAAAGTTGAAGGACTTCACTGGAAGAGATAAGC
EST: gi|88489339|gb|CI426611.1|CI426611
EST:     TGCCTCAAAGCATGATCTGGATGCACAAATAGCTTTGAAGCCTTTAATAG                         ACCTAGCTCTATCTGTTTCAAAGTTGAAGGACTTCACTGGAAGAGATAAGC
genomic: TGCCTCAAAGCATGATCTGGATGCACAAATAGCTTTGAAGCCTTTAATAGgtaactatca ... atttctgcagACCTAGCTCTATCTGTTTCAAAGTTGAAGGACTTCACTGGAAGAGATAAGC
EST: gi|86257302|gb|CI004120.1|CI004120
EST:     TGCCTCAAAGCATGATCTGGATGCACAAATAGCTTTGAAGCCTTTAATAG                         ACCTAGCTCTATCTGTTTCAAAGTTGAAGGACTTCACTGGAAGAGATAAGC
genomic: TGCCTCAAAGCATGATCTGGATGCACAAATAGCTTTGAAGCCTTTAATAGgtaactatca ... atttctgcagACCTAGCTCTATCTGTTTCAAAGTTGAAGGACTTCACTGGAAGAGATAAGC
EST: gi|58611262|gb|CK038974.1|CK038974
EST:     TGCCTCAAAGCATGATCTGGATGCACAAATAGCTTTGAAGCCTTTAATAG                         ACCTAGCTCTATCTGTTTCAAAGTTGAAGGACTTCACTGGAAGAGATAAGC
genomic: TGCCTCAAAGCATGATCTGGATGCACAAATAGCTTTGAAGCCTTTAATAGgtaactatca ... atttctgcagACCTAGCTCTATCTGTTTCAAAGTTGAAGGACTTCACTGGAAGAGATAAGC
EST: gi|86842613|gb|CI341764.1|CI341764
EST:     TGCCTCAAAGCATGATCTGGATGCACAAATAGCTTTGAAGCCTTTAATAG                         ACCTAGCTCTATCTGTTTCAAAGTTGAAGGACTTCACTGGAAGAGATAAGC
genomic: TGCCTCAAAGCATGATCTGGATGCACAAATAGCTTTGAAGCCTTTAATAGgtaactatca ... atttctgcagACCTAGCTCTATCTGTTTCAAAGTTGAAGGACTTCACTGGAAGAGATAAGC
EST: gi|44665085|gb|CR278519.1|CR278519
EST:     TGCCTCAAAGCATGATCTGGATGCACAAATAGCTTTGAAGCCTTTAATAG                         ACCTAGCTCTATCTGTTTCAAAGTTGAAGGACTTCACTGGAAGAGATAAGC
genomic: TGCCTCAAAGCATGATCTGGATGCACAAATAGCTTTGAAGCCTTTAATAGgtaactatca ... atttctgcagACCTAGCTCTATCTGTTTCAAAGTTGAAGGACTTCACTGGAAGAGATAAGC
EST: gi|86503671|gb|CI146304.1|CI146304
EST:     TGCCTCAAAGCATGATCTGGATGCACAAATAGCTTTGAAGCCTTTAATAG                         ACCTAGCTCTATCTGTTTCAAAGTTGAAGGACTTCACTGGAAGAGATAAGC
genomic: TGCCTCAAAGCATGATCTGGATGCACAAATAGCTTTGAAGCCTTTAATAGgtaactatca ... atttctgcagACCTAGCTCTATCTGTTTCAAAGTTGAAGGACTTCACTGGAAGAGATAAGC
EST: gi|88532332|gb|CI461814.1|CI461814
EST:     TGCCTCAAAGCATGATCTGGATGCACAAATAGCTTTGAAGCCTTTAATAG                         ACCTAGCTCTATCTGTTTCAAAGTTGAAGGACTTCACTGGAAGAGATAAGC
genomic: TGCCTCAAAGCATGATCTGGATGCACAAATAGCTTTGAAGCCTTTAATAGgtaactatca ... atttctgcagACCTAGCTCTATCTGTTTCAAAGTTGAAGGACTTCACTGGAAGAGATAAGC
EST: gi|86491779|gb|CI134412.1|CI134412
EST:     TGCCTCAAAGCATGATCTGGATGCACAAATAGCTTTGAAGCCTTTAATAG                         ACCTAGCTCTATCTGTTTCAAAGTTGAAGGACTTCACTGGAAGAGATAAGC
genomic: TGCCTCAAAGCATGATCTGGATGCACAAATAGCTTTGAAGCCTTTAATAGgtaactatca ... atttctgcagACCTAGCTCTATCTGTTTCAAAGTTGAAGGACTTCACTGGAAGAGATAAGC
EST: gi|29681951|gb|CB678226.1|CB678226
EST:     TGCCTCAAAGCATGATCTGGATGCACAAATAGCTTTGAAGCCTTTAATAG                         ACCTAGCTCTATCTGTTTCAAAGTTGAAGGACTTCACTGGAAGAGATAAGC
genomic: TGCCTCAAAGCATGATCTGGATGCACAAATAGCTTTGAAGCCTTTAATAGgtaactatca ... atttctgcagACCTAGCTCTATCTGTTTCAAAGTTGAAGGACTTCACTGGAAGAGATAAGC
EST: gi|88414073|gb|CI531045.1|CI531045
EST:     TGCCTCNAAGCATGATCTGGATGCACAAATANCTTTGAAGCCTTTAATAG                         ACCTAGCTCTATCTGTTTCAAAGTTGAAGGACTTCACTGGAAGAGATAAGC
genomic: TGCCTCAAAGCATGATCTGGATGCACAAATAGCTTTGAAGCCTTTAATAGgtaactatca ... atttctgcagACCTAGCTCTATCTGTTTCAAAGTTGAAGGACTTCACTGGAAGAGATAAGC
EST: gi|88544375|gb|CI473075.1|CI473075
EST:     TNCCTCAAAGCATGATCTGGATGCACAAATAGCTTTGAAGCCTTTAATAG                         ACCTAGCTGTATCTGGTTCAAAGTTGAAGNACTTCACTGGAAGAGATAAGC
genomic: TGCCTCAAAGCATGATCTGGATGCACAAATAGCTTTGAAGCCTTTAATAGgtaactatca ... atttctgcagACCTAGCTCTATCTGTTTCAAAGTTGAAGGACTTCACTGGAAGAGATAAGC
EST: gi|88256808|gb|CI354589.1|CI354589
EST:     CTCAAAGCATGATCTGGATGCACAAATAGCTTTGAAGCCTTTAATAG                         ACCTAGCTCTATCTGTTTCAAAGTTGAAGGACTTCACTGGAAGAGATAAGC
genomic: CTCAAAGCATGATCTGGATGCACAAATAGCTTTGAAGCCTTTAATAGgtaactatca ... atttctgcagACCTAGCTCTATCTGTTTCAAAGTTGAAGGACTTCACTGGAAGAGATAAGC
EST: gi|88517407|gb|CI445061.1|CI445061
EST:     TGCCTCAAAGCATGATCTGGATGCACAGATAGCTTTGAAGCCTTTAATAG                         ACCTAGCTCTATCTGTTTCAAAGTTGAAGGACTTCACTGGAAGAGATAAGC
genomic: TGCCTCAAAGCATGATCTGGATGCACAAATAGCTTTGAAGCCTTTAATAGgtaactatca ... atttctgcagACCTAGCTCTATCTGTTTCAAAGTTGAAGGACTTCACTGGAAGAGATAAGC
EST: gi|86498572|gb|CI141205.1|CI141205
EST:     TGCCTCAAAGCATGATCTGGATGCACAAATAGCTTTGAAGCCTTTAATAG                         ACCTAGCTCTATCTGTTTCAAAGTTGAAGGACTTCACTGGAAGAGATAAGC
genomic: TGCCTCAAAGCATGATCTGGATGCACAAATAGCTTTGAAGCCTTTAATAGgtaactatca ... atttctgcagACCTAGCTCTATCTGTTTCAAAGTTGAAGGACTTCACTGGAAGAGATAAGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcctgaaattatgtgtatatataaactactcataaactattttaaatttctgcagACCTAGCTCTATCTGTTTCAAAGTTGAAGGACTTCACTGGAAGAGATAAGCCTACTGTCATAACATAAACATACCGGTGACATTAGCAATGTTACCACCT
                                              tttctgc  CT-rich tract
             tgtatatataaactac  TA-rich tract