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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTCGTGGGGAACTTGCTCAAGGGTCAGACTGTGGGAGTCATCGGAGCTGGTCGAATCGGCTCAGCTTACGCAAGAATGATGgttagttcagttggtaccttactagctaggactattattattatagtaggagtaattatttgttcaatttcgcaattgcaccacaaaattactcatgtaaacatttccttttaccacag

Basic information

species Oryza sativa
transcript LOC_Os02g01150.1
intron # 5
splice site 5'
intron type U2

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|38477990|gb|CF962123.1|CF962123
EST:     TGGGAGTCATCGGAGCTGGTCGAATCGGCTCAGCTTACGCAAGAATGATG                         ATCGAGGGCTTCAAGATGAACTTGATCTACTACGACCTGTATCAGTCCACG
genomic: TGGGAGTCATCGGAGCTGGTCGAATCGGCTCAGCTTACGCAAGAATGATGgttagttcag ... tttaccacagATCGAGGGCTTCAAGATGAACTTGATCTACTACGACCTGTATCAGTCCACG
EST: gi|58691582|gb|CK080269.1|CK080269
EST:     TGGGAGTCATCGGAGCTGGTCGAATCGGCTCAGCTTACGCAAGAATGATG                         ATCGAGGGCTTCCAAGATGAACTTGATCTACTACGACCTGTATCAGTCCAC
genomic: TGGGAGTCATCGGAGCTGGTCGAATCGGCTCAGCTTACGCAAGAATGATGgttagttcag ... tttaccacagATCGAGGGCTTC-AAGATGAACTTGATCTACTACGACCTGTATCAGTCCAC
EST: gi|29674134|gb|CB670409.1|CB670409
EST:     TGGGAGTCATCGGAGCTGGTCGAATCGGCTCAGCTTACGCAAGAATGATG                         ATCGAGGGCTTCAAGATGAACTTGATCTACTACGACCTGTATCAGTCCACG
genomic: TGGGAGTCATCGGAGCTGGTCGAATCGGCTCAGCTTACGCAAGAATGATGgttagttcag ... tttaccacagATCGAGGGCTTCAAGATGAACTTGATCTACTACGACCTGTATCAGTCCACG
EST: gi|29680605|gb|CB676880.1|CB676880
EST:     TGGGAGTCATCGGAGCTGGTCGAATCGGCTCAGCTTACGCAAGAATGATG                         ATCGAGGGCTTCAAGATGAACTTGATCTACTACGACCTGTATCAGTCCACG
genomic: TGGGAGTCATCGGAGCTGGTCGAATCGGCTCAGCTTACGCAAGAATGATGgttagttcag ... tttaccacagATCGAGGGCTTCAAGATGAACTTGATCTACTACGACCTGTATCAGTCCACG
EST: gi|58693460|gb|CK082147.1|CK082147
EST:     TGGGAGTCATCGGAGCTGGTCGAATCGGCTCAGCTTACGCAAGAATGATG                         ATCGAGGGCTTCAAGATGAACTTGATCTACTACGACCTGTATCAGTCCACG
genomic: TGGGAGTCATCGGAGCTGGTCGAATCGGCTCAGCTTACGCAAGAATGATGgttagttcag ... tttaccacagATCGAGGGCTTCAAGATGAACTTGATCTACTACGACCTGTATCAGTCCACG
EST: gi|29616322|gb|CB621334.1|CB621334
EST:     TGGGAGTCATCGGAGCTGGTCGAATCGGCTCAGCTTACGCAAGAATGATG                         ATCGAGGGCTTCAAGATGAACTTGATCTACTACGACCTGTATCAGTCCACG
genomic: TGGGAGTCATCGGAGCTGGTCGAATCGGCTCAGCTTACGCAAGAATGATGgttagttcag ... tttaccacagATCGAGGGCTTCAAGATGAACTTGATCTACTACGACCTGTATCAGTCCACG
EST: gi|10794734|gb|AU108700.1|AU108700
EST:     TGGGAGTCATCGGAGCTGGTCGAATCGGCTCAGCTTACGCAAGAATGATG                         ATCGAGGGCTTCAAGATGAACTTGATCTACTACGACCTGTATCAGTCCACG
genomic: TGGGAGTCATCGGAGCTGGTCGAATCGGCTCAGCTTACGCAAGAATGATGgttagttcag ... tttaccacagATCGAGGGCTTCAAGATGAACTTGATCTACTACGACCTGTATCAGTCCACG
EST: gi|29682953|gb|CB679228.1|CB679228
EST:     TGGGAGTCATCCGAGCTGGTCTAATCGGCTCATCTTACGCAAGAATGATG                         ATCGAGGGCTTCAAGATGAACTTGATCTACTACGACCTGTATCAGTCCACG
genomic: TGGGAGTCATCGGAGCTGGTCGAATCGGCTCAGCTTACGCAAGAATGATGgttagttcag ... tttaccacagATCGAGGGCTTCAAGATGAACTTGATCTACTACGACCTGTATCAGTCCACG
EST: gi|29682997|gb|CB679272.1|CB679272
EST:     TGGGAGTCATCGGAGCTGGTCGAATCGGCTCAGCTTACGCAAGAATGATG                         ATCGAGGGCTTCAAGATGAACTTGATCTACTACGACCTGTATCAGTCCACG
genomic: TGGGAGTCATCGGAGCTGGTCGAATCGGCTCAGCTTACGCAAGAATGATGgttagttcag ... tttaccacagATCGAGGGCTTCAAGATGAACTTGATCTACTACGACCTGTATCAGTCCACG
EST: gi|29655664|gb|CB651939.1|CB651939
EST:     TGGGAGTCATCGGAGCTGGTCGAATCGGCTCAGCTTACGCAAGAATGATG                         ATCGAGGGCTTCAAGATGAACTTGATCTACTACGACCTGTATCAGTCCACG
genomic: TGGGAGTCATCGGAGCTGGTCGAATCGGCTCAGCTTACGCAAGAATGATGgttagttcag ... tttaccacagATCGAGGGCTTCAAGATGAACTTGATCTACTACGACCTGTATCAGTCCACG
EST: gi|11442863|gb|BF430762.1|BF430762
EST:     GGGAGTCATCGGAGCTGGTCGACATCGGCTCAGCTTACGCAAGAATGATG                         ATCGAGGGCTTCAAGATGAACTTGATCTACTACGACCTGTATCAGTCCACG
genomic: GGGAGTCATCGGAGCTGGTCGA-ATCGGCTCAGCTTACGCAAGAATGATGgttagttcag ... tttaccacagATCGAGGGCTTCAAGATGAACTTGATCTACTACGACCTGTATCAGTCCACG
EST: gi|29621567|gb|CB626578.1|CB626578
EST:     TGGGAGTCATCGGAGCTGGTCGAATCGGCTCAGCTTACGCAAGAATGATG                         ATCGAGGGCTTCAAGATGAACTTGATCTACTACGACCTGTATCAGTCCACG
genomic: TGGGAGTCATCGGAGCTGGTCGAATCGGCTCAGCTTACGCAAGAATGATGgttagttcag ... tttaccacagATCGAGGGCTTCAAGATGAACTTGATCTACTACGACCTGTATCAGTCCACG
EST: gi|58606736|gb|CK034769.1|CK034769
EST:     TGGGAGTCATCGGAGCTGGTCGAATCGGCTCAGCTTACGCAAGAATGATG                         ATCGAGGGCTTCAAGATGAACTTG
genomic: TGGGAGTCATCGGAGCTGGTCGAATCGGCTCAGCTTACGCAAGAATGATGgttagttcag ... tttaccacagATCGAGGGCTTCAAGATGAACTTG
EST: gi|29660668|gb|CB656943.1|CB656943
EST:     TGGGAGTCATCGGAGCTGGTCGAATCGGCTCAGCTTACGCAAGAATGATG                         ATCGAGGGCTTCAAGATGAACTTGATCTACTACGACCTGTATCAGTCCACG
genomic: TGGGAGTCATCGGAGCTGGTCGAATCGGCTCAGCTTACGCAAGAATGATGgttagttcag ... tttaccacagATCGAGGGCTTCAAGATGAACTTGATCTACTACGACCTGTATCAGTCCACG
EST: gi|29678225|gb|CB674500.1|CB674500
EST:     TGGGAGTCATCGGAGCTGGTCGAATCGGCTCAGCTTACGCAAGAATGATG                         ATCGAGGGCTTCAAGATGAACTTGATCTACTACGACCTGTATCAGTCCACG
genomic: TGGGAGTCATCGGAGCTGGTCGAATCGGCTCAGCTTACGCAAGAATGATGgttagttcag ... tttaccacagATCGAGGGCTTCAAGATGAACTTGATCTACTACGACCTGTATCAGTCCACG
EST: gi|38481826|gb|CF965897.1|CF965897
EST:     AGCTGGTCGAATCGGCTCAGCTTACGCAAGAATGATG                         ATCGAGGGCTTCAAGATGAACTTGATCTACTACGACCTGTATCAGTCCACG
genomic: AGCTGGTCGAATCGGCTCAGCTTACGCAAGAATGATGgttagttcag ... tttaccacagATCGAGGGCTTCAAGATGAACTTGATCTACTACGACCTGTATCAGTCCACG
EST: gi|29613448|gb|CB618461.1|CB618461
EST:     TGGGAGTCATCGGAGCTGGTCGAATCGGCTCAGCTTACGCAAGAATGATG                         ATCGAGGGCTTCAAGATGAACTTGATCTACTACGACCTGTATCAGTCCACG
genomic: TGGGAGTCATCGGAGCTGGTCGAATCGGCTCAGCTTACGCAAGAATGATGgttagttcag ... tttaccacagATCGAGGGCTTCAAGATGAACTTGATCTACTACGACCTGTATCAGTCCACG
EST: gi|29676108|gb|CB672383.1|CB672383
EST:     TGGGAGTCATCGGAGCTGGTCGAATCGGCTCAGCTTACGCAAGAATGATG                         ATCGAGGGCTTCAAGATGAACTTGATCTACTACGACCTGTATCAGTCCACG
genomic: TGGGAGTCATCGGAGCTGGTCGAATCGGCTCAGCTTACGCAAGAATGATGgttagttcag ... tttaccacagATCGAGGGCTTCAAGATGAACTTGATCTACTACGACCTGTATCAGTCCACG

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTTCGTGGGGAACTTGCTCAAGGGTCAGACTGTGGGAGTCATCGGAGCTGGTCGAATCGGCTCAGCTTACGCAAGAATGATGgttagttcagttggtaccttactagctaggactattattattatagtaggagtaattatttgttcaatttcgcaattgcaccacaaaattactcatgtaaacatttccttttaccacag

- - - - - - - - - - - - - - - - - - - - -  GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA