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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttcgtttaaattgttatgttttgtttgattcagttcagggcctaaaaagattaatggaatgatgattatgtgcactgaatctatatgtcaatgctttagGAACTGTTTGAGGGGCAGTACTTCTGTCAAGCTCAAAGGTTGGACTTCTTTCAACGTGCTAAGCCTTATAAAGGGAACCCAACTATAATCAG

Basic information

species Oryza sativa
transcript LOC_Os02g33080.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g33080.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G073950_T01 (Zea mays), 3'ss of exon 2
----------------------------tttcgtttaaattgttatgttttgttt---gattcagttcag----ggcctaaaaagattaatgga-atgatgatt---atgtgcactgaatct-------------------atatgtc---aatgctttagGAACTGTTTGAGGGGCAGTACTTCTGTCAAGCTCAAAGGTTGGACTTCTTTCAACGTGCTAAGCCTTATAAAGGGAACCCAACTATAATCAG
                                 ||| |||||  ||| ||  |||    | | |   |||    ||| ||  |   |  |  || ||  |  ||    | | |  | ||| |                   |||| ||   ||||   |||||| ||||||||||||| || ||||| |||||||||||  |||| |||||||  || ||||||||||| ||||| || |||||||| || ||
gtaaatttatgtgatagctatggatcatcaagattttaattgcaatgcttcttttcaaaactgaaagcagaaagggcataggagtttggacagatattctcgtttccgttttccttaaattttttattcaatctctccctcatatttcttaaatgtcctagGAATTGTTTGAGGGGCACTATTTCTGCCAAGCTCAAAGACTGGATTTCTTTCGGCGCGCTAAGCCTTACAAAGGCAATCCAACTATTATAAG
















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|426766|gb|D22837.1|D22837
EST:     GTTGATAAGAGAAGCTCATAAGAAAGGAGCAAACATTGTCCTTGTTCAG                         GAACTGTTTGAGGGGCAGTACTTCTGTCAAGCTCAAAGGTTGGACTTCTTT
genomic: GTTGATAAGAGAAGCTCATAAGAAAGGAGCAAACATTGTCCTTGTTCAGgtatatttat ... aatgctttagGAACTGTTTGAGGGGCAGTACTTCTGTCAAGCTCAAAGGTTGGACTTCTTT
EST: gi|4969136|gb|AU066040.1|AU066040
EST:     GTTGATAAGAGAAGCTCATAAGAAAGGAGCAAACATTGTCCTTGTTCAG                         GAACTGTTTNAGGGGCAGTACTTCTGTCAAGCTCAAAGGTTGGACTTCTTT
genomic: GTTGATAAGAGAAGCTCATAAGAAAGGAGCAAACATTGTCCTTGTTCAGgtatatttat ... aatgctttagGAACTGTTTGAGGGGCAGTACTTCTGTCAAGCTCAAAGGTTGGACTTCTTT
EST: gi|25800212|gb|CA756173.1|CA756173
EST:     GTTGATAAGAGAAGCTCATAAGAAAGGAGCAAACATTGTCCTTGTTCAG                         GAACTGTTTGAGGGGCAGTACTTCTGTCAAGCTCAAAGGTTGGACTTCTTT
genomic: GTTGATAAGAGAAGCTCATAAGAAAGGAGCAAACATTGTCCTTGTTCAGgtatatttat ... aatgctttagGAACTGTTTGAGGGGCAGTACTTCTGTCAAGCTCAAAGGTTGGACTTCTTT
EST: gi|27576202|gb|CA998896.1|CA998896
EST:     TTGATAAGAGAAGCTCATAAGAAAGGAGCAAACATTGTCCTTGTTCAG                         GAACTGTTTGAGGGGCAGTACTTCTGTCAAGCTCAAAGGTTGGACTTCTTT
genomic: TTGATAAGAGAAGCTCATAAGAAAGGAGCAAACATTGTCCTTGTTCAGgtatatttat ... aatgctttagGAACTGTTTGAGGGGCAGTACTTCTGTCAAGCTCAAAGGTTGGACTTCTTT
EST: gi|38476031|gb|CF960164.1|CF960164
EST:     TGATAAGAGAAGCTCATAAGAAAGGAGCAAACATTGTCCTTGTTCAG                         GAACTGTTTGAGGGGGAGTACTTCTGTCAAGCTCAAAGGTTGGACTTCTTT
genomic: TGATAAGAGAAGCTCATAAGAAAGGAGCAAACATTGTCCTTGTTCAGgtatatttat ... aatgctttagGAACTGTTTGAGGGGCAGTACTTCTGTCAAGCTCAAAGGTTGGACTTCTTT
EST: gi|58602261|gb|CK012789.1|CK012789
EST:     GTTGATAAGAGAAGCTCATAAGAAAGGAGCAAACATTGTCCTTGTTCAG                         GAACTGTTTGAGGGGCAGTACTTCTGTCAAGCTCAAAGGTTGGACTTCTTT
genomic: GTTGATAAGAGAAGCTCATAAGAAAGGAGCAAACATTGTCCTTGTTCAGgtatatttat ... aatgctttagGAACTGTTTGAGGGGCAGTACTTCTGTCAAGCTCAAAGGTTGGACTTCTTT
EST: gi|29671592|gb|CB667867.1|CB667867
EST:     GTTGATAAGAGAAGCTCATAAGAAAGGAGCAAACATTGTCCTTGTTCAG                         GAACTGTTTGAGGGGCAGTACTTCTGTCAAGCTCAAAGGTTGGACTTCTTT
genomic: GTTGATAAGAGAAGCTCATAAGAAAGGAGCAAACATTGTCCTTGTTCAGgtatatttat ... aatgctttagGAACTGTTTGAGGGGCAGTACTTCTGTCAAGCTCAAAGGTTGGACTTCTTT
EST: gi|33795740|gb|CF323739.1|CF323739
EST:     GTTGATAAGAGAAGCTCATAAGAAAGGAGCAAACATTGTCCTTGTTCAG                         GAACTGTTTGAGGGGCAGTACTTCTGTCAAGCTCAAAGGTTGGACTTCTTT
genomic: GTTGATAAGAGAAGCTCATAAGAAAGGAGCAAACATTGTCCTTGTTCAGgtatatttat ... aatgctttagGAACTGTTTGAGGGGCAGTACTTCTGTCAAGCTCAAAGGTTGGACTTCTTT
EST: gi|58679024|gb|CK067711.1|CK067711
EST:     GTTGATAAGAGAAGCTCATAAGAAAGGAGC-AACA-TGTCCTTGTTCAG                         GAACTGTTTGAGGGGCAGTACTTCTGTCAAGCTCAAAGGTTGGACTTCTTT
genomic: GTTGATAAGAGAAGCTCATAAGAAAGGAGCAAACATTGTCCTTGTTCAGgtatatttat ... aatgctttagGAACTGTTTGAGGGGCAGTACTTCTGTCAAGCTCAAAGGTTGGACTTCTTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaaagattaatggaatgatgattatgtgcactgaatctatatgtcaatgctttagGAACTGTTTGAGGGGCAGTACTTCTGTCAAGCTCAAAGGTTGGACTTCTTTCAACGTGCTAAGCCTTATAAAGGGAACCCAACTATAATCAG
    gattaat  putative branch site (score: 3)
                                 aatctatat  TA-rich tract