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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtgtattgctttaagaaatgttacatctcctatgattgaactaattatgcatattgacatttattgtgaattgttgcagAAGCTACTCCCAAGGGTGTGTTAAAGCTAATGAAGGCAGACAATTTGACCATTTATCATGTTAAAAGTCACCTTCAG

Basic information

species Oryza sativa
transcript LOC_Os07g25710.4
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os07g25710.4 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G162409_T01 (Zea mays), 3'ss of exon 3
gtgtgtattgctttaagaaatgttacatctcctatgattgaactaattatgcatattgacatttattgtgaattgttgcagAAGCTACTCCCAAGGGTGTGTTAAAGCTAATGAAGGCAGACAATTTGACCATTTATCATGTTAAAAGTCACCTTCAG
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gtgcgtactgcttgcagacat---atgtctcccatgattga--------ttcgttttgacattttccttaaattgttgcagAAGCAACTCCTAAGGGTGTCCTGAAGCTAATGAAGGCAGACAATTTGACCATTTATCATGTAAAAAGTCATCTTCAG
















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|58669237|gb|CK057923.1|CK057923
EST:     ACTTCATGAGCGCTTTGTAGATGCTGTCAATCTACTTGGTGGCAGTGAAA                         AAGCTACTCCCAAGGGTGTGTTAAAGCTAATGAAGGCAGACAATTTGACCA
genomic: ACTTCATGAGCGCTTTGTAGATGCTGTCAATCTACTTGGTGGCAGTGAAAgtgtgtattg ... attgttgcagAAGCTACTCCCAAGGGTGTGTTAAAGCTAATGAAGGCAGACAATTTGACCA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atctcctatgattgaactaattatgcatattgacatttattgtgaattgttgcagAAGCTACTCCCAAGGGTGTGTTAAAGCTAATGAAGGCAGACAATTTGACCATTTATCATGTTAAAAGTCACCTTCAG
                           tattgac  putative branch site (score: 2)
                          atattgacatttatt  TA-rich tract