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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agcaatgggattagagggagggtactctagttgcagaatgcactactatgcattgtcatttcagagatcatttagcaaccatacttttttttttcatcagGAATCAGGCAAAGATAGTCAAGATAAGAAAAGAAATCATATCAAAGGACTTCTCGTTGCCGCAACTGACTGTGAACCTCAATACATTACACGACTACTTC

Basic information

species Oryza sativa
transcript LOC_Os10g34750.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os10g34750.2 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G071304_T01 (Zea mays), 3'ss of exon 2
agcaa---tgggattaga----gggagggtactctagttgcagaatgcactactatgcattgtcatttcagagatcatttagcaaccatacttttttttttcatcagGAATCAGGCAAAGATAGTCAAGATAAGAAAAGAAATCATATCAAAGGACTTCTCGTTGCCGCAACTGACTGTGAACCTCAATACATTACACGACTACTTC
||  |   ||||||| ||    | | || || | |  || || | ||||| | ||  || | ||| || ||| ||| |||| |||  || || || ||      ||||||||||||||||| ||||||||||| |||||||| ||||| || |||||||| ||||| ||||||||||||||||| || ||||| ||||| || ||||
agtgagcctgggattcgacccagagtggataatgtgcttccatagtgcaccattacacagt-tcacttgagaaatcgtttaacaagtattctcttatt------cagGAATCAGGCAAAGACAGTCAAGATAAAAAAAGAAACCATATGAAGGGACTTCTTGTTGCTGCAACTGACTGTGAACCCCAGTACATCACACGCCTTCTTC

upper sequence: LOC_Os10g34750.2 (Oryza sativa), 3'ss of exon 2
lower sequence: GLYMA11G19880.1 (Glycine max), 3'ss of exon 2
agcaatgggattagagggagggtactcta-gttgcagaatgcactactatgcattgtcatttcagagatcatttagcaaccatacttttttttttcat-cagGAATCAGGCAAAGATAGTCAAGATAAGAAAAGAAATCATATCAAAGGACTTCTCGTTGCCGCAACTGACTGTGAACCTCAATACATTACACGACTACTTC
   |   | ||| | |   || |     |   |     ||  |   ||     |||| |  |    | |  | |     |  || || |    |   | |||||||  || ||||| |||||||| |||||||  |||||||| || | |||||| ||| | |||||||||||||||||||||||  | |  ||  | || |
-aaagaagaatttgtgtttggatttgaaacaattttttatatagagctgaatgttgttaaatttt-gctggtatgatgtctttatttctaaaatgtgtacagGAATATGGGAAAGAAAGTCAAGAGAAGAAAAAGAATCATATGAAGGCACTTCTTGTTTCTGCAACTGACTGTGAACCTCAATATCTAATCCGTTTGCTAC

upper sequence: LOC_Os10g34750.2 (Oryza sativa), 3'ss of exon 2
lower sequence: GLYMA12G08600.1 (Glycine max), 3'ss of exon 2
--------agcaatgggattagagggagggtactcta-gttgcagaatgcactactatgcattgtcatttcagagatcatttagcaaccatacttttttttttcatcagGAATCAGGCAAAGATAGTCAAGATAAGAAAAGAAATCATATCAAAGGACTTCTCGTTGCCGCAACTGACTGTGAACCTCAATACATTACACGACTACTTC
         |   ||||||| ||   ||  |  | ||    || ||||  | |  ||    |||    | ||  |    | |  | |  |||  | | |       |||||||| || ||||| |||||||| |||||||  ||||||||||| | |||||| ||||| |||||||||||||||||||||||  | |  ||  | || |
gattattttgtgttgggatttgaaacagttttttgtatagagctgaat--attgttaaattttgctggtacattgtctttatttctaa-ataaatgtcta------cagGAATCTGGGAAAGAAAGTCAAGAGAAGAAAAAGAATCATATCAAGGCACTTCTTGTTGCTGCAACTGACTGTGAACCTCAATATCTAATCCGTTTGCTAC

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|29629334|gb|CB634345.1|CB634345
EST:     AACCACTGACGATCTCACATGTACTTGCAAAATTCCGGACAATTGCAAAG                         GAATCAGGCAAAGATAGTCAAGATAAGAAAAGAAATCATATCAAAGGACTT
genomic: AACCACTGACGATCTCACATGTACTTGCAAAATTCCGGACAATTGCAAAGgttttattcc ... ttttcatcagGAATCAGGCAAAGATAGTCAAGATAAGAAAAGAAATCATATCAAAGGACTT
EST: gi|218492522|gb|FG943268.1|FG943268
EST:     AACCACTGACGATCTCACATGTACTTGCAAAATTCCGGACAATTGCAAAG                         GAATCAGGCAAAGATAGTCAAGATAAGAAAAGAAATCATATCAAAGGACTT
genomic: AACCACTGACGATCTCACATGTACTTGCAAAATTCCGGACAATTGCAAAGgttttattcc ... ttttcatcagGAATCAGGCAAAGATAGTCAAGATAAGAAAAGAAATCATATCAAAGGACTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctatgcattgtcatttcagagatcatttagcaaccatacttttttttttcatcagGAATCAGGCAAAGATAGTCAAGATAAGAAAAGAAATCATATCAAAGGACTTCTCGTTGCCGCAACTGACTGTGAACCTCAATACATTACACGACTACTTC
                                 ccatactttttttttt  CT-rich tract
                                   atacttttttttttca  TA-rich tract