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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aatgcacatatggaacaaaaaggaattatatttttttttggaaaatgtatctccatataatcttttggcatccctaaaaaggatattatcatgtttccagCTTGGTGAAGAGCTTTTGTTCACGATAGGCGGGCAACATATTCCTTTCGGTGCATCACCGCAG

Basic information

species Oryza sativa
transcript LOC_Os06g49990.2
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g49990.1 (Oryza sativa), 3'ss of exon 7
lower sequence: GRMZM2G116434_T01 (Zea mays), 3'ss of exon 7
aatgcacatatggaacaaaaaggaattatatttttttttggaaaatgt-atctccatataatcttttggcatccctaaaaaggatattat-catgtttccagCTTGGTGAAGAGCTTTTGTTCACGATAGGCGGGCAACATATTCCTTTCGGTGCATCACCGCAG
   |   ||||| |  |     || || | | | || ||      |   ||    |   | ||||          |||| |   | |||| | ||||| |||||||||||||| |||| |||||| ||||| ||||||||||||||||| ||||||||||| |||
--cgtgtatatgaattagttgtgatttctgtatgttatttagtcttacgattcttaccaagtcttaccagtggattaaacattttcttatacttgttttcagCTTGGTGAAGAACTTTGGTTCACAATAGGGGGGCAACATATTCCTTTTGGTGCATCACCACAG
















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|11442702|gb|BF430605.1|BF430605
EST:     TTCCTGCATTACCTGCAGGCAGCCTGTACATGGAGGAAGTGCATGCAAAG                         CTTGGTGAAGAGCTTTTGTTCACGATAGGCGGGCAACATATTCCTTTCGGT
genomic: TTCCTGCATTACCTGCAGGCAGCCTGTACATGGAGGAAGTGCATGCAAAGgtatatcacc ... atgtttccagCTTGGTGAAGAGCTTTTGTTCACGATAGGCGGGCAACATATTCCTTTCGGT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtatctccatataatcttttggcatccctaaaaaggatattatcatgtttccagCTTGGTGAAGAGCTTTTGTTCACGATAGGCGGGCAACATATTCCTTTCGGTGCATCACCGCAG
                          ccctaaa  putative branch site (score: 3)
                                              tgtttcc  putative PPT
                             taaaaaggatattat  TA-rich tract