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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAAAGTTTGAAGGATTCAAAAAAGGCAAATGGGCCAGAGAAAGGCCCAAGTCTCGTCTTTAAGATAACTAACAGGGTTGCCTACAAAACAGTTCTAAAAGgttaagatccctgaatacctcagcttgatttttttctttataagacccttgttgtctaaatggtgtatttccttttacag

Basic information

species Oryza sativa
transcript LOC_Os06g13820.1
intron # 17
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g13820.1 (Oryza sativa), 5'ss of exon 17
lower sequence: GRMZM5G811223_T01 (Zea mays), 5'ss of exon 5
AAAAGTTTGAAGGATTCAAAAAAGGCAAATGGGCCAGAGAAAGGCCCAAGTCTCGTCTTTAAGATAACTAACAGGGTTGCCTACAAAACAGTTCTAAAAGgtta-agatccctgaatacctcagctt---gattt---ttttctttataagacccttgttgtctaaatggtgtatttccttttacag------
||||| |  || || |||||||||||||||||  |||| |||  ||||||||| || |||||||| |||||||||||||| |||||||||||  |||||||||  | | ||   |||    |||| |   || ||   ||| ||| ||    |  || || | || ||  | | | | |||| | |       
AAAAGCTCAAAAGACTCAAAAAAGGCAAATGGATCAGAAAAACCCCCAAGTCTTGTATTTAAGATTACTAACAGGGTTGCATACAAAACAGTCTTAAAAGgttgtataccctcaaatcgtacagcctatggagttatatttgcttcatggttctgtttttttttatataat-tctctgctttaatatttgcag

upper sequence: LOC_Os06g13820.1 (Oryza sativa), 5'ss of exon 17
lower sequence: GRMZM2G157462_T01 (Zea mays), 5'ss of exon 17
AAAAGTTTGAAGGATTCAAAAAAGGCAAATGGGCCAGAGAAAGGCCCAAGTCTCGTCTTTAAGATAACTAACAGGGTTGCCTACAAAACAGTTCTAAAAGgttaagat--ccctgaatacctcagctt---gattt---ttttctttataagacccttgttgtctaaatggt-gtatttccttttacag
|||||||  ||||| |||||||||||||||||  |||| |||  | ||||||| || |||||||| ||||| |||||||| |||||||| || || ||||||| | ||  || |||||    ||||||   || ||   ||| |||| |    |  || || | ||| |  | |  ||   |||| |||
AAAAGTTCAAAGGACTCAAAAAAGGCAAATGGATCAGAAAAAATCTCAAGTCTTGTATTTAAGATTACTAATAGGGTTGCATACAAAACGGTCCTCAAAGgttgatatacccttgaatcgtacagcttatggagttgtatttgctttgtgtttctgtttttttataattctttgctttaaattttgcag
















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|325493116|gb|JG457640.1|JG457640
EST:     TCTCGTCTTTAAGATAACTAACAGGGTTGCCTACAAAACAGTTCTAAAAG                         CTCATAGTGCTGTTGTATTGAAAGCTGAGAGCACGGCCGACAAAGTTGAGT
genomic: TCTCGTCTTTAAGATAACTAACAGGGTTGCCTACAAAACAGTTCTAAAAGgttaagatcc ... ccttttacagCTCATAGTGCTGTTGTATTGAAAGCTGAGAGCACGGCCGACAAAGTTGAGT
EST: gi|29614012|gb|CB619025.1|CB619025
EST:     TCTCGTCTTTAAGATAACTAACAGGGTTGCCTACAAAACAGTTCTAAAAG                         CTCATAGTGCTGTTGTATTGAAAGCTGAGAGCACGGCCGACAAAGTTGAGT
genomic: TCTCGTCTTTAAGATAACTAACAGGGTTGCCTACAAAACAGTTCTAAAAGgttaagatcc ... ccttttacagCTCATAGTGCTGTTGTATTGAAAGCTGAGAGCACGGCCGACAAAGTTGAGT
EST: gi|29657562|gb|CB653837.1|CB653837
EST:     TCTCGTCTTTAAGATAACTAACAGGGTTGCCTACAAAACAGTTCTAAAAG                         CTCATAGTGCTGTTGTATTGAAAGCTGAGAGCACGGCCGACAAAGTTGAGT
genomic: TCTCGTCTTTAAGATAACTAACAGGGTTGCCTACAAAACAGTTCTAAAAGgttaagatcc ... ccttttacagCTCATAGTGCTGTTGTATTGAAAGCTGAGAGCACGGCCGACAAAGTTGAGT
EST: gi|58652777|gb|CK041457.1|CK041457
EST:     TCTCGTCTTTAAGATAAGTAACAGGGTTGCCTACAAAACAGTTCTAAAAG                         CTCATAGTGCTGTTGTATTGAAAGCTGAGAGCACGGCCGACAAAGTTGAGT
genomic: TCTCGTCTTTAAGATAACTAACAGGGTTGCCTACAAAACAGTTCTAAAAGgttaagatcc ... ccttttacagCTCATAGTGCTGTTGTATTGAAAGCTGAGAGCACGGCCGACAAAGTTGAGT
EST: gi|33795777|gb|CF323758.1|CF323758
EST:     TCTCGTCTTTAAGATAACTAACAGGGTTGCCTACAAAACAGTTCTAAAAG                         CTCATAGTGCTGTTGTATTGAAAGCTGAGAGCACGGCCGACAAAGTTGAGT
genomic: TCTCGTCTTTAAGATAACTAACAGGGTTGCCTACAAAACAGTTCTAAAAGgttaagatcc ... ccttttacagCTCATAGTGCTGTTGTATTGAAAGCTGAGAGCACGGCCGACAAAGTTGAGT
EST: gi|58679703|gb|CK068390.1|CK068390
EST:     TCTCGTCTTTAAGATAACTAACAGGGTTGCCTACAAAACAGTTCTAAAAG                         CTCATAGTGCTGTTGTATTGAAAGCTGAGAGCACGGCCGACAAAGTTGAGT
genomic: TCTCGTCTTTAAGATAACTAACAGGGTTGCCTACAAAACAGTTCTAAAAGgttaagatcc ... ccttttacagCTCATAGTGCTGTTGTATTGAAAGCTGAGAGCACGGCCGACAAAGTTGAGT