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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGTGATCGCGTCCCTTGAACCCACCCCAAGGAAGAGCCAGAATATCCGTCTAAATAGAATAATGACATAATGTCATACGAGAGCTCAAGTGCTCAACACGgtgggttattaatctctcagcaattagccccagcaattcttgttttcatgtttactaatatgcacatgctcctcaagcag

Basic information

species Oryza sativa
transcript LOC_Os01g64780.2
intron # 7
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|88844233|gb|CI005606.1|CI005606
EST:     TAAATAGAATAATGACATAATGTCATACGAGAGCTCAAGTGCTCAACACG                         ATCGTGTTATGTGTGGAATCGGTGTGACTCTGGTGCTCTGACCATTGCTCT
genomic: TAAATAGAATAATGACATAATGTCATACGAGAGCTCAAGTGCTCAACACGgtgggttatt ... cctcaagcagATCGTGTTATGTGTGGAATCGGTGTGACTCTGGTGCTCTGACCATTGCTCT
EST: gi|88259970|gb|CI363180.1|CI363180
EST:     TAAATAGAATAATGACATAATGTCATACGAGAGCTCAAGTGGTCAACACG                         ATCGTGTTATGTTTGGAATCGGTGTGACTCTGTTGCTCTGACCATTGCTCT
genomic: TAAATAGAATAATGACATAATGTCATACGAGAGCTCAAGTGCTCAACACGgtgggttatt ... cctcaagcagATCGTGTTATGTGTGGAATCGGTGTGACTCTGGTGCTCTGACCATTGCTCT
EST: gi|29626495|gb|CB631506.1|CB631506
EST:     TAAATAGAATAATGACATAATGTCATACGAGAGCTCAAGTGCTCAACACG                         ATCGTGTTATGTGTGGAATCGGTGTGACTCTGGTGCTCTGACCATTGCTCT
genomic: TAAATAGAATAATGACATAATGTCATACGAGAGCTCAAGTGCTCAACACGgtgggttatt ... cctcaagcagATCGTGTTATGTGTGGAATCGGTGTGACTCTGGTGCTCTGACCATTGCTCT
EST: gi|88273182|gb|CI388638.1|CI388638
EST:     TAAATAGAATAATGACATAATGTCATACGAGAGCTCAAGTGGTCAACACG                         ATCGTGTTATGTGTGGAATCGGGGTGACTCTGGTGCTCTGACCATTGCTCT
genomic: TAAATAGAATAATGACATAATGTCATACGAGAGCTCAAGTGCTCAACACGgtgggttatt ... cctcaagcagATCGTGTTATGTGTGGAATCGGTGTGACTCTGGTGCTCTGACCATTGCTCT
EST: gi|33681466|gb|CF309705.1|CF309705
EST:     TAAATAGAATAATGACATAATGTCATACGAGAGCTCAAGTGCTCAACACG                         ATCGTGTTATGTGTGGAATCGGTGTGACTCTGGTGCTCTGACCATTGCTCT
genomic: TAAATAGAATAATGACATAATGTCATACGAGAGCTCAAGTGCTCAACACGgtgggttatt ... cctcaagcagATCGTGTTATGTGTGGAATCGGTGTGACTCTGGTGCTCTGACCATTGCTCT
EST: gi|88429235|gb|CI690129.1|CI690129
EST:     TAAATAGAATAATGACATAATGTCATACGAGAGCTCAAGTGCTCAACACG                         ATCGTGTTATGTGTGGAATCGGTGTGACTCTGGTGCTCTGACC
genomic: TAAATAGAATAATGACATAATGTCATACGAGAGCTCAAGTGCTCAACACGgtgggttatt ... cctcaagcagATCGTGTTATGTGTGGAATCGGTGTGACTCTGGTGCTCTGACC
EST: gi|8856716|gb|AU094034.1|AU094034
EST:     TAAATAGAATAATGACATAATGTCATACGAGAGCTCAAGTGCTCAACACG                         ATCGTGTTATGTGTGGAATCGGTGTGACTCTGGTGCTCTGNCCATTGCTCT
genomic: TAAATAGAATAATGACATAATGTCATACGAGAGCTCAAGTGCTCAACACGgtgggttatt ... cctcaagcagATCGTGTTATGTGTGGAATCGGTGTGACTCTGGTGCTCTGACCATTGCTCT
EST: gi|86255848|gb|CI068297.1|CI068297
EST:     TAAATAGAATAATGACATAATGTCATACGAGAGCTCAAGTGCTCAACACG                         ATCGTGTTATGTGTGGAATCGGTGTGACTCTGGTGCTCTGACCATTGCTCT
genomic: TAAATAGAATAATGACATAATGTCATACGAGAGCTCAAGTGCTCAACACGgtgggttatt ... cctcaagcagATCGTGTTATGTGTGGAATCGGTGTGACTCTGGTGCTCTGACCATTGCTCT
EST: gi|33671271|gb|CF299510.1|CF299510
EST:     TAATGACATAATGTCATACGAGAGCTCAAGTGCTCAACACG                         ATCGTGTTATGTGTGGAATCGGTGTGACTCTGGTGCTCTGACCATTGCTCT
genomic: TAATGACATAATGTCATACGAGAGCTCAAGTGCTCAACACGgtgggttatt ... cctcaagcagATCGTGTTATGTGTGGAATCGGTGTGACTCTGGTGCTCTGACCATTGCTCT
EST: gi|29683440|gb|CB679715.1|CB679715
EST:     TAAATAGAATAATGACATAATGTCATACGAGAGCTCAAGTGCTCAACACG                         ATCGTGTTATGTGTGGAATCGGTGTGACTCTG
genomic: TAAATAGAATAATGACATAATGTCATACGAGAGCTCAAGTGCTCAACACGgtgggttatt ... cctcaagcagATCGTGTTATGTGTGGAATCGGTGTGACTCTG
EST: gi|88480863|gb|CI418134.1|CI418134
EST:     TAGAATAATGACATAATGTCATACGAGAGCTCAAGTGCTCAACACG                         ATCGTGTTATGTGTGGAATCGGTGTGACTCTGGTGCTCTGACCATTGCTCT
genomic: TAGAATAATGACATAATGTCATACGAGAGCTCAAGTGCTCAACACGgtgggttatt ... cctcaagcagATCGTGTTATGTGTGGAATCGGTGTGACTCTGGTGCTCTGACCATTGCTCT
EST: gi|88297161|gb|CI545251.1|CI545251
EST:     ATAATGTTCATACGGAGAGCTCAAGTGCTCAACACG                         ATCGTGTTATGTGTGGAATCGGTGTGACTCTGGTGCTCTGACCATTGCTCT
genomic: ATAATG-TCATAC-GAGAGCTCAAGTGCTCAACACGgtgggttatt ... cctcaagcagATCGTGTTATGTGTGGAATCGGTGTGACTCTGGTGCTCTGACCATTGCTCT
EST: gi|86256623|gb|CI061386.1|CI061386
EST:     TAAATAGAATAATGACATAATGTCATACGAGAGCTCAAGTGCTCAACACG                         ATCGTGTTATGTGTGGAATCGGTGTGACTCTGGTGCTCTGACCATTGCTCT
genomic: TAAATAGAATAATGACATAATGTCATACGAGAGCTCAAGTGCTCAACACGgtgggttatt ... cctcaagcagATCGTGTTATGTGTGGAATCGGTGTGACTCTGGTGCTCTGACCATTGCTCT
EST: gi|88981799|gb|CI027377.1|CI027377
EST:     TAAATAGAATAATGACATAATGTCATACGAGAGCTCAAGTGCTCAACACG                         ATCGTGTTATGTGTGGAATCGGTGTGACTCTGGTGCTCTGACCATTGCTCT
genomic: TAAATAGAATAATGACATAATGTCATACGAGAGCTCAAGTGCTCAACACGgtgggttatt ... cctcaagcagATCGTGTTATGTGTGGAATCGGTGTGACTCTGGTGCTCTGACCATTGCTCT
EST: gi|27547116|gb|CA765115.2|CA765115
EST:     TAAATAGAATAATGACATAATGTCATACGAGAGCTCAAGTGCTCAACACG                         ATCGTGTTATGTGTGGAATCGGTGTGACTCTGGTGCTCTGACCATTGCTCT
genomic: TAAATAGAATAATGACATAATGTCATACGAGAGCTCAAGTGCTCAACACGgtgggttatt ... cctcaagcagATCGTGTTATGTGTGGAATCGGTGTGACTCTGGTGCTCTGACCATTGCTCT
EST: gi|86483176|gb|CI125809.1|CI125809
EST:     TAAATAGAATAATGACATAATGTCATACGAGAGCTCAAGTGCTCAACACG                         ATCGTGTTATGTGTGGAATCGGTGTGACTCTGGTGCTCTGACCATTGCTCT
genomic: TAAATAGAATAATGACATAATGTCATACGAGAGCTCAAGTGCTCAACACGgtgggttatt ... cctcaagcagATCGTGTTATGTGTGGAATCGGTGTGACTCTGGTGCTCTGACCATTGCTCT
EST: gi|27920852|gb|CB096660.1|CB096660
EST:     TAAATAGAATAATGACATAATGTCATACGAGAGCTCAAGTGCTCAACACG                         ATCGTGTTATGTGTGGAATCGGTGTGACTCTGGTGCTCTGACCATTGCTCT
genomic: TAAATAGAATAATGACATAATGTCATACGAGAGCTCAAGTGCTCAACACGgtgggttatt ... cctcaagcagATCGTGTTATGTGTGGAATCGGTGTGACTCTGGTGCTCTGACCATTGCTCT
EST: gi|88485380|gb|CI422651.1|CI422651
EST:     TAAATAGAATAATGACATAATGTCATACGAGAGCTCAAGTGCTCNACACG                         ATCGTGTTATGTGTGGAATCGGTGTGACTCTGGTGCTCTGACCATTGCTCT
genomic: TAAATAGAATAATGACATAATGTCATACGAGAGCTCAAGTGCTCAACACGgtgggttatt ... cctcaagcagATCGTGTTATGTGTGGAATCGGTGTGACTCTGGTGCTCTGACCATTGCTCT
EST: gi|33671272|gb|CF299511.1|CF299511
EST:     TAGAATAATGACATAATGTCATACGAGAGCTCAAGTGCTCAACACG                         ATCGTGTTATGTGTGGAATCGGTGTGACTCTGGTGCTCTGACCATTGCTCT
genomic: TAGAATAATGACATAATGTCATACGAGAGCTCAAGTGCTCAACACGgtgggttatt ... cctcaagcagATCGTGTTATGTGTGGAATCGGTGTGACTCTGGTGCTCTGACCATTGCTCT
EST: gi|325493984|gb|JG458508.1|JG458508
EST:     GAATAATGACATAATGTCATACGAGAGCTCAAGTGCTCAACACG                         ATCGTGTTATGTGTGGAATCGGTGTGACTCTGGTGCTCTGACCATTGCTCT
genomic: GAATAATGACATAATGTCATACGAGAGCTCAAGTGCTCAACACGgtgggttatt ... cctcaagcagATCGTGTTATGTGTGGAATCGGTGTGACTCTGGTGCTCTGACCATTGCTCT
EST: gi|86435931|gb|CI107164.1|CI107164
EST:     TAAATAGAATAATGACATAATGTCATACGAGAGCTCAAGTGCTCAACGCG                         ATCGTGTTATGTGTGGAATCGGTGTGACTCTGGTGCTCTGACCATTGCTCT
genomic: TAAATAGAATAATGACATAATGTCATACGAGAGCTCAAGTGCTCAACACGgtgggttatt ... cctcaagcagATCGTGTTATGTGTGGAATCGGTGTGACTCTGGTGCTCTGACCATTGCTCT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGTGATCGCGTCCCTTGAACCCACCCCAAGGAAGAGCCAGAATATCCGTCTAAATAGAATAATGACATAATGTCATACGAGAGCTCAAGTGCTCAACACGgtgggttattaatctctcagcaattagccccagcaattcttgttttcatgtttactaatatgcacatgctcctcaagcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTCA