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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCAAGGGCAATTTCCTCCAGCAGTTCAAACAAACCTGTATAATCATGCGGCTTCTTCTGGTGGAGTGAGAGAACAAGTTCATCTTACTCAAGCAAACCAAgtatgaaattttacatatcgttttgagaattgcttgcttataaaaaatataacatattaatagtatatgatttagttggtatatctgagaactgagattt...

Basic information

species Oryza sativa
transcript LOC_Os06g47830.1
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|86493839|gb|CI136472.1|CI136472
EST:     CTTCTTCTGGTGGAGTGAGAGAACAAGTTCATCTTACTCAAGCAAACCAA                         TTTTCAGCTTACTCAAGCACTGGTGGACTACAGCATGACCCACAAAGAATG
genomic: CTTCTTCTGGTGGAGTGAGAGAACAAGTTCATCTTACTCAAGCAAACCAAgtatgaaatt ... cccggcccagTTTTCAGCTTACTCAAGCACTGGTGGACTACAGCATGACCCACAAAGAATG
EST: gi|86488840|gb|CI131473.1|CI131473
EST:     CTTCTTCTGGTGGAGTGAGAGAACAAGTTCATCTTACTCAAGCAAACCAA                         TTTTCAGCTTACTCAAGCACTGGTGGACTACAGCATGACCCACAAAGAATG
genomic: CTTCTTCTGGTGGAGTGAGAGAACAAGTTCATCTTACTCAAGCAAACCAAgtatgaaatt ... cccggcccagTTTTCAGCTTACTCAAGCACTGGTGGACTACAGCATGACCCACAAAGAATG
EST: gi|86493329|gb|CI135962.1|CI135962
EST:     CTTCTTCTGGTGGAGTGAGAGAACAAGTTCATCTTACTCAAGCAAACCAA                         TTTTCAGCTTACTCAAGCACTGGTGGACTACAGCATGACCCACAAAGAATG
genomic: CTTCTTCTGGTGGAGTGAGAGAACAAGTTCATCTTACTCAAGCAAACCAAgtatgaaatt ... cccggcccagTTTTCAGCTTACTCAAGCACTGGTGGACTACAGCATGACCCACAAAGAATG
EST: gi|86832680|gb|CI345097.1|CI345097
EST:     CTTCTTCTGGTGGAGTGAGAGAACAAGTTCATCTTACTCAAGCAAACCAA                         TTTTCAGCTTACTCAAGCACTGGTGGACTACAGCATGACCCACAAAGAATG
genomic: CTTCTTCTGGTGGAGTGAGAGAACAAGTTCATCTTACTCAAGCAAACCAAgtatgaaatt ... cccggcccagTTTTCAGCTTACTCAAGCACTGGTGGACTACAGCATGACCCACAAAGAATG
EST: gi|9865822|gb|AU101572.1|AU101572
EST:     CTTCTTCTGGTGGAGTGAGAGAACAAGTTCATCTTACTCAAGCAAACCAA                         TTTTCAGCTTACTCAAGCACTGGTGGACTACAGCATGACC
genomic: CTTCTTCTGGTGGAGTGAGAGAACAAGTTCATCTTACTCAAGCAAACCAAgtatgaaatt ... cccggcccagTTTTCAGCTTACTCAAGCACTGGTGGACTACAGCATGACC
EST: gi|56158607|gb|AU101573.2|AU101573
EST:     GAACAAGTTCATCTTACTCAAGCAAACCAA                         TTTTCAGCTTACTCAAGCACTGGTGGACTACAGCATGACCCACAAAGAATG
genomic: GAACAAGTTCATCTTACTCAAGCAAACCAAgtatgaaatt ... cccggcccagTTTTCAGCTTACTCAAGCACTGGTGGACTACAGCATGACCCACAAAGAATG
EST: gi|86483717|gb|CI126350.1|CI126350
EST:     TCTTCTGGTGGAGTGAGAGAACAAGTTCATCTTACTCAAGCAAACCAA                         TTTTCAGCTTACTCAAGCACTGGTGGACTACAGCATGACCCACAAAGAATG
genomic: TCTTCTGGTGGAGTGAGAGAACAAGTTCATCTTACTCAAGCAAACCAAgtatgaaatt ... cccggcccagTTTTCAGCTTACTCAAGCACTGGTGGACTACAGCATGACCCACAAAGAATG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CCAAGGGCAATTTCCTCCAGCAGTTCAAACAAACCTGTATAATCATGCGGCTTCTTCTGGTGGAGTGAGAGAACAAGTTCATCTTACTCAAGCAAACCAAgtatgaaattttacatatcgttttgagaattgcttgcttataaaaaatataacatattaatagtatatgatttagttggtatatctgagaactgagattt

- - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaaaat