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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgaaatttcgctgtccttgaatttcttttcttttcttttttttcacagaggaagctgtccttcttaactatgattttacttctaatatgttctcctgcagCTTCGGTTGAGAAGAGTGAATTGGTTACAAATTCAACTCCGGTAACTATTGATTCAAACCATTTCCATGGCACCCTTCGACGAGCGAAAAGTGAGAATGA

Basic information

species Oryza sativa
transcript LOC_Os08g34060.1
intron # 15
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os08g34060.2 (Oryza sativa), 3'ss of exon 15
lower sequence: GRMZM2G160927_T01 (Zea mays), 3'ss of exon 3
tgaaatttcgctgtccttgaatttcttttcttttcttttttttcacagaggaagctgtccttcttaactatgattttacttctaatatgttctcctgcagCTTCGGTTGAGAAGAGTGAATTGGTTACAAATTCAACTCCGGTAACTATTGATTCAAACCATTTCCATGGCACCCTTCGACGAGCGAAAAGTGAGAATGA
| || |||   | |  |   | ||   |||| ||    |  || |  |     | | |   | ||   | | |||| | |     |   || | ||||||||| ||||||||  |||||||||||||||||||| | ||| || ||| ||||  | | ||| ||||||||||||||||   ||||||||| | | |||||
tcaactttgcttctattcttagtttagttctgtttcagtcatttaatgcaactgttttttgttttctatttaatttgattatggttcaatttttctgcagCTTTGGTTGAGACAAGTGAATTGGTTACAAATTCTAGTCCAGTTACTGTTGACCCCAGCCACTTCCATGGCACCCTTCATAGAGCGAAAACTCAAAATGA
















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|14571409|gb|BI118777.1|BI118777
EST:     CGAGAATATTTCATGGGCTATCGCAGGTCTTGCTATGAAACCGACTAAAG                         CTTCGGGTTGAGAAGAGTGAATTGGTTACAAATTCAACTCCGGTAACTTAT
genomic: CAAGAATATTTCATGGGCTATCGCAGGTCTTGCTATGAAACCGACTAAAGgtcataatcg ... tctcctgcagCTTCGG-TTGAGAAGAGTGAATTGGTTACAAATTCAACTCCGGTAACT-AT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cagaggaagctgtccttcttaactatgattttacttctaatatgttctcctgcagCTTCGGTTGAGAAGAGTGAATTGGTTACAAATTCAACTCCGGTAACTATTGATTCAAACCATTTCCATGGCACCCTTCGACGAGCGAAAAGTGAGAATGA
                                  ttctaat  putative branch site (score: 2)
                                          tgttctcct  CT-rich tract
                           attttacttctaatat  TA-rich tract