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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTGATCTCGGGGATGGTGATGGGGATGGTGGTCGGCGTCGCGCTTATGGCCGGGTGGAGCCGTGTGATGCAGCGGCGCAGCAGGAAGCGCATCGCTAAGgttcgtgtttcgggtgcgcgtggtggtgatgcttcgcctggattgctccttgtttctgcgtataaggctagggtgatggtcgtttaattttcgtggtcgaggttttgatttttgtttagtttttccgaaactttttctacag

Basic information

species Oryza sativa
transcript LOC_Os07g22640.4
intron # 1
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|29655975|gb|CB652250.1|CB652250
EST:     CCGGGTGGAGCCGTGTGATGCAGCGGCGCAGCAGGAAGCGCATCGCTAAG                         GCTGCGGATATCAAGGTCCTTGGGTCTCTCGGTAGGGACGATCTCAAGAAG
genomic: CCGGGTGGAGCCGTGTGATGCAGCGGCGCAGCAGGAAGCGCATCGCTAAGgttcgtgttt ... ttttctacagGCTGCGGATATCAAGGTCCTTGGGTCTCTCGGTAGGGACGATCTCAAGAAG
EST: gi|29624991|gb|CB630002.1|CB630002
EST:     CCGGGTGGAGCCGTGTGATGCAGCGGCGCAGCAGGAAGCGCATCGCTAAG                         GCTGCGGATATCAAGGTCCTTGGGTCTCTCGGTAGGGACGATCTCAAGAAG
genomic: CCGGGTGGAGCCGTGTGATGCAGCGGCGCAGCAGGAAGCGCATCGCTAAGgttcgtgttt ... ttttctacagGCTGCGGATATCAAGGTCCTTGGGTCTCTCGGTAGGGACGATCTCAAGAAG
EST: gi|88571744|gb|CI663117.1|CI663117
EST:     CCGGGTGGAGCCGTGTGATGCAGCGGCGCACCAGGAACCGCATCGCTAAG                         GCTGCGGATATCAAGGTCCTTGGGTCTCTCGGTAGGGACGATCTCAAGAAG
genomic: CCGGGTGGAGCCGTGTGATGCAGCGGCGCAGCAGGAAGCGCATCGCTAAGgttcgtgttt ... ttttctacagGCTGCGGATATCAAGGTCCTTGGGTCTCTCGGTAGGGACGATCTCAAGAAG
EST: gi|88330676|gb|CI635310.1|CI635310
EST:     CCGGGTGGAGCCGTGTGATGCAGCGGCGCAGCAGGAAGCGCATCGCTAAG                         GCTGGGGATATCAAGGTCCTT
genomic: CCGGGTGGAGCCGTGTGATGCAGCGGCGCAGCAGGAAGCGCATCGCTAAGgttcgtgttt ... ttttctacagGCTGCGGATATCAAGGTCCTT
EST: gi|88570414|gb|CI661787.1|CI661787
EST:     CCGGGTGGAGCCGTGTGATGCAGCGGCGCAGCAGGAAGCGCATCGCTAAG                         GCTGCGGATATCAAGGTCCTTGGGTCTCTCGGTAGGGACGATCTCAAGAAG
genomic: CCGGGTGGAGCCGTGTGATGCAGCGGCGCAGCAGGAAGCGCATCGCTAAGgttcgtgttt ... ttttctacagGCTGCGGATATCAAGGTCCTTGGGTCTCTCGGTAGGGACGATCTCAAGAAG
EST: gi|87006718|gb|CI285752.1|CI285752
EST:     CCGGGTGGAGCCGTGTGATGCAGCGGCGCAGCAGGAAGCGCATCGCTAAG                         GCTGCGGATATCAAGGTCCTTGGGTCTCTCGGTAGGGACGATCTCAAGAAG
genomic: CCGGGTGGAGCCGTGTGATGCAGCGGCGCAGCAGGAAGCGCATCGCTAAGgttcgtgttt ... ttttctacagGCTGCGGATATCAAGGTCCTTGGGTCTCTCGGTAGGGACGATCTCAAGAAG
EST: gi|44674448|gb|CR287882.1|CR287882
EST:     CCGGGTGGAGTCGTGTGATG-AGCGGCGCAGCAGGAAGCGCATCGCTAAG                         GCTGCGGATATCAAGGTCCTTGGGTCTCTCGGTAGGGACGATCTCAAGAAG
genomic: CCGGGTGGAGCCGTGTGATGCAGCGGCGCAGCAGGAAGCGCATCGCTAAGgttcgtgttt ... ttttctacagGCTGCGGATATCAAGGTCCTTGGGTCTCTCGGTAGGGACGATCTCAAGAAG
EST: gi|88307913|gb|CI646348.1|CI646348
EST:     CCGGGTGGAGCCGTGTGATGCAGCGGCGCAGCAGGAAGCGCATCGCTAAG                         GCTGCGGATATCAAGGT
genomic: CCGGGTGGAGCCGTGTGATGCAGCGGCGCAGCAGGAAGCGCATCGCTAAGgttcgtgttt ... ttttctacagGCTGCGGATATCAAGGT
EST: gi|29630138|gb|CB635147.1|CB635147
EST:     CCGGGTGGAGCCGTGTGATGCAGCGGCGCAGCAGGAAGCGCATCGCTAAG                         GCTGCGGATATCAAGGTCCTTGGGTCTCTCGGTAGGGACGATCTCAAGAAG
genomic: CCGGGTGGAGCCGTGTGATGCAGCGGCGCAGCAGGAAGCGCATCGCTAAGgttcgtgttt ... ttttctacagGCTGCGGATATCAAGGTCCTTGGGTCTCTCGGTAGGGACGATCTCAAGAAG
EST: gi|58606676|gb|CK034709.1|CK034709
EST:     CCGGGTGGAGCCGTGTGATGCAGCGGCGCAGCAGGAAGCGCATCGCTAAG                         GCTGCGGATATCAAGGTCGTTGGGTCTCTCGGTAGGGACGATCTCAAGAAG
genomic: CCGGGTGGAGCCGTGTGATGCAGCGGCGCAGCAGGAAGCGCATCGCTAAGgttcgtgttt ... ttttctacagGCTGCGGATATCAAGGTCCTTGGGTCTCTCGGTAGGGACGATCTCAAGAAG
EST: gi|29662931|gb|CB659206.1|CB659206
EST:     CCGGGTGGAGCCGTGTGATGCAGCGGCGCAGCAGGAAGCGCATCGCTAAG                         GCTGCGGATATCAAGGTCCTTGGGTCTCTCGGTAGGGACGATCTCAAGAAG
genomic: CCGGGTGGAGCCGTGTGATGCAGCGGCGCAGCAGGAAGCGCATCGCTAAGgttcgtgttt ... ttttctacagGCTGCGGATATCAAGGTCCTTGGGTCTCTCGGTAGGGACGATCTCAAGAAG
EST: gi|88338482|gb|CI645736.1|CI645736
EST:     CCGGGTGGAGCCGTGTGATGCAGCGGCGCAGCAGGAAGCGCATCGCTAAG                         GCTGCGGATATCAAGGTCCTTGGGTCTCTCGGTAGGGACGATCTCAAGAAG
genomic: CCGGGTGGAGCCGTGTGATGCAGCGGCGCAGCAGGAAGCGCATCGCTAAGgttcgtgttt ... ttttctacagGCTGCGGATATCAAGGTCCTTGGGTCTCTCGGTAGGGACGATCTCAAGAAG
EST: gi|29624993|gb|CB630004.1|CB630004
EST:     CCGGGTGGAGCCGTGTGATGCAGCGGCGCAGCAGGAAGCGCATCGCTAAG                         GCTGCGGATATCAAGGTCCTTGGGTCTCTCGGTAGGGACGATCTCAAGAAG
genomic: CCGGGTGGAGCCGTGTGATGCAGCGGCGCAGCAGGAAGCGCATCGCTAAGgttcgtgttt ... ttttctacagGCTGCGGATATCAAGGTCCTTGGGTCTCTCGGTAGGGACGATCTCAAGAAG
EST: gi|88732005|gb|CI757182.1|CI757182
EST:     CCGGGTGGAGCCGTGTGATGCAGCGGCGCACCAGGAAGCGCATCGCTAAG                         GCTGCGGATATCAAGGTCCTTGGGTCTCTCGGTAGGGACGATCTCAAGAAG
genomic: CCGGGTGGAGCCGTGTGATGCAGCGGCGCAGCAGGAAGCGCATCGCTAAGgttcgtgttt ... ttttctacagGCTGCGGATATCAAGGTCCTTGGGTCTCTCGGTAGGGACGATCTCAAGAAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCTGATCTCGGGGATGGTGATGGGGATGGTGGTCGGCGTCGCGCTTATGGCCGGGTGGAGCCGTGTGATGCAGCGGCGCAGCAGGAAGCGCATCGCTAAGgttcgtgtttcgggtgcgcgtggtggtgatgcttcgcctggattgctccttgtttctgcgtataaggctagggtgatggtcgtttaattttcgtggtcgaggttttgatttttgtttagtttttccgaaactttttctacag

- - - - - - - - - - - - - - - - - - - - - - - - - -  GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG