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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtgaccattgcttattttaaaactggggagatgagctctatcacatatccactgtactctacagtattcatcatcaaataatgctcttcatgtcaaatgagtctgatccttaattaacatcccagGTTCCTCTGATGGGCTTATACGTTTTTGGGAAAATGAAGGTGAGATCTTCTGCATTTGTTGTTTGGTGCTCTTTTGGGAAATTCTGATCTTGTGCCTTTT

Basic information

species Oryza sativa
transcript LOC_Os01g39380.3
intron # 29
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g39380.3 (Oryza sativa), 3'ss of exon 29
lower sequence: GRMZM2G074466_T01 (Zea mays), 3'ss of exon 9
gtatgtgaccattgcttattttaaaactggggagatgagctctatcacatatccactgtactctacagtattcatcatcaaataatgctcttcatgtcaaatgagtctgatccttaattaacatcccagGTTCCTCTGATGGGCTTATACGTTTTTGGGAAAATGAAGGTGAGATCTTCTGCATTTGTTGTTTGGTGCTCTTTTGGGAAATTCTGATCTTGTGCCTTTT
||||||||| ||  || ||||||| |   ||| |                     ||| | | |   | ||  ||  |  ||||    ||| ||||         |||||| |||||||   || ||||||||  |||||||||| ||||| ||||||||||||||||                                                             
gtatgtgactatatctcattttaagaacagggtggc-------------------ctgaattgt---ggatctatagttgaata---ttctgcatgct-------tctgattcttaatt--tattccagGTTCAGCTGATGGGCTCATACGATTTTGGGAAAATGAAG-------------------------------------------------------------
















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|66923642|gb|CX110490.1|CX110490
EST:     CCCAATACTCTGTGTTGAGTACTCACCCTCAGATAAAGGAATCATCACGG                         GTTCCTCTGATGGGCTTATACGTTTTTGGGAAAA
genomic: CCCAATACTCTGTGTTGAGTACTCACCCTCAGATAAAGGAATCATCACGGgtatgtgacc ... aacatcccagGTTCCTCTGATGGGCTTATACGTTTTTGGGAAAA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcatcaaataatgctcttcatgtcaaatgagtctgatccttaattaacatcccagGTTCCTCTGATGGGCTTATACGTTTTTGGGAAAATGAAGGTGAGATCTTCTGCATTTGTTGTTTGGTGCTCTTTTGGGAAATTCTGATCTTGTGCCTTTT
                                         aattaac  putative branch site (score: 2)
                                       ttaattaacat  TA-rich tract