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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtacaatttgtgctttctatatttggaattttcagctagaaatgcttaataatgattgtttctactgcatttctgtccatgcagGTTGTCCAGCTTACCAAATTTGACTACCGGGTTTCCAATAGGTTGGAGACTAACCTTCAAAAGCTTAGGTGCAGAGTCAATTATCATGCACTACAGTTCA

Basic information

species Oryza sativa
transcript LOC_Os04g47520.2
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g47520.2 (Oryza sativa), 3'ss of exon 6
lower sequence: GRMZM2G142664_T01 (Zea mays), 3'ss of exon 6
--------------------gtaagtacaatttgtgctttctatatttggaattttcagctagaaa--tgcttaataatgattgtttctactgcatttctgtccatgcagGTTGTCCAGCTTACCAAATTTGACTACCGGGTTTCCAATAGGTTGGAGACTAACCTTCAAAAGCTTAGGTGCAGAGTCAATTATCATGCACTACAGTTCA
                     | | |   |  |||  |    |  | ||  ||||||||  | |||   ||| |||  |||   |   | ||  |    || || | |||||||| ||| | |||||||||||||||||  | || |||| | | |||||| | ||||||||||||||||| |||||||||||||||||||||  ||| |
gtaagcattaatttttttttttgaatctgacatgt-ttcctgaagtctgacattttcagtgaaaaaaacgctcaattctgac-atcaattcttgagcgttgacc-tacagGTTGTTCAGTTAACCAAATTTGACTACCGATTGTCAAATAAGCTAGAGACTGATCTTCAAAAGCTTAGGTGTAGAGTCAATTATCATGCACTAAGGTTTA
















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|58608156|gb|CK036189.1|CK036189
EST:     CTGCAAAATGCTATGAGAACCGAGTATTACCTGCCCTTCTGAAAAAACAT                         GTTGTCCAGCTTACCAAATTTGACTACCGGGTT
genomic: CTGCAAAATGCTATGAGAACCGAGTATTACCTGCCCTTTTGAAAAAACATgtaagtacaa ... gtccatgcagGTTGTCCAGCTTACCAAATTTGACTACCGGGTT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttcagctagaaatgcttaataatgattgtttctactgcatttctgtccatgcagGTTGTCCAGCTTACCAAATTTGACTACCGGGTTTCCAATAGGTTGGAGACTAACCTTCAAAAGCTTAGGTGCAGAGTCAATTATCATGCACTACAGTTCA
              gcttaat  putative branch site (score: 4)
                                        tttctgtcc  putative PPT
                ttaataatgattgttt  TA-rich tract