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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctgacaatcgtaatacctttgattctgtttatctctgcatctaattgtttcgctatatttgtgaatctgaacctctatcattgactggtgataaatgcagTGTGTTTTGCCAGCTGGAGTAAGGATATACTCTTCTGGGTTGGATGCAAATGATTTCTCAACCTATCCACGGAGTTATCCCATAGTTTTGACAG

Basic information

species Oryza sativa
transcript LOC_Os01g39380.3
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g39380.2 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G074572_T01 (Zea mays), 3'ss of exon 1
ctgacaatcgtaatacctttgattctgtttatctctgcatctaattgtttcgctatatttgtgaatctgaacctctat--cattgactggtgataaatgcagTGTGTTTTGCCAGCTGGAGTAAGGATATACTCTTCTGGGTTGGATGCAAATGATTTCTCAACCTATCCACGGAGTTATCCCATAGTTTTGACAG
 | | |||  ||     |||   | |   |       |  ||  || || |  |  ||| |||||||| | ||| |||  ||||||||||| | |||||||||||||||||||||| |||||||| ||||| ||||| ||| ||||  || ||||| ||||||| |||||||| |||||||| |||||||| ||||
-tta-aatgatatctaatttctctttaaattgagaaactgctcctttttcctttggattcgtgaatctcatcctatataacattgactggtcacaaatgcagTGTGTTTTGCCAGCGGGAGTAAGAATATATTCTTCAGGGCTGGACACAGATGATGTCTCAACTTATCCACGTAGTTATCCTATAGTTTTAACAG
















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|25803848|gb|CA759809.1|CA759809
EST:     CGCCCTCCAGCCACGCGCTCTACCCGCCCCCGCCGCCGCAGCTCCCCACC                         TGTGTTTTGCCAGCTGGAGTAAGGATATACTCTTCTGGGTTGGATGCAAAT
genomic: CGCCCTCCAGCCACGCGCTCTACCCGCCCCCGCCGCCGCAGCTCCCCACCgtgagcaccc ... ataaatgcagTGTGTTTTGCCAGCTGGAGTAAGGATATACTCTTCTGGGTTGGATGCAAAT
EST: gi|58688976|gb|CK077663.1|CK077663
EST:     CGCCCTCCAGCCACGCGCTCTACCCGCCCCCGCCGCCGCAGCTCCCCACC                         TGTGTTTTGCCAGCTGGAGTAAGGATATACTCTTCTGGGTTGGATGCAAAT
genomic: CGCCCTCCAGCCACGCGCTCTACCCGCCCCCGCCGCCGCAGCTCCCCACCgtgagcaccc ... ataaatgcagTGTGTTTTGCCAGCTGGAGTAAGGATATACTCTTCTGGGTTGGATGCAAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtttcgctatatttgtgaatctgaacctctatcattgactggtgataaatgcagTGTGTTTTGCCAGCTGGAGTAAGGATATACTCTTCTGGGTTGGATGCAAATGATTTCTCAACCTATCCACGGAGTTATCCCATAGTTTTGACAG
                                 cattgac  putative branch site (score: 3)
        tatatttgt  TA-rich tract