Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGAGATGGTGTGAACATTTCAGCAAATGCGATCCATCCCGGTTTTGTTGGAACCAACCTATTCAAGAACTGGACTATGGCTAATGgtaatccctagacctttcaatgcaaaattgttgaagatatttttggaataaattagtagtacttgaagaagcatactcttcaaaatattaatttgggatg...

Basic information

species Oryza sativa
transcript LOC_Os10g40030.11
intron # 8
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|88521223|gb|CI448894.1|CI448894
EST:     TCCCGGTTTTGTTGGAACCAACCTATTCAAGAACTGGACTATGGCTAATG                         CTGTGGTGAACACCATTGGAAGAATCGTATGTAAAACTGTAGAACAG
genomic: TCCCGGTTTTGTTGGAACCAACCTATTCAAGAACTGGACTATGGCTAATGgtaatcccta ... tccattacagCTGTGGTGAACACCATTGGAAGAATCGTATGTAAAACTGTAGAACAG
EST: gi|88277301|gb|CI398103.1|CI398103
EST:     TTTTGTTGGAACCAACCTATTCAAGAACTGGACTATGGCTAATG                         CTGTGGTGAACACCATTGGAAGAATCGTATGTAAAACTGTAGAACAG
genomic: TTTTGTTGGAACCAACCTATTCAAGAACTGGACTATGGCTAATGgtaatcccta ... tccattacagCTGTGGTGAACACCATTGGAAGAATCGTATGTAAAACTGTAGAACAG
EST: gi|29656761|gb|CB653036.1|CB653036
EST:     TCCCGGTTTTGTTGGAACCAACCTATTCAAGAACTGGACTATGGCTAATG                         CTGTGGTGAACACCATTGGAAGAATCGTATGTAAAACTGTAGAACAG
genomic: TCCCGGTTTTGTTGGAACCAACCTATTCAAGAACTGGACTATGGCTAATGgtaatcccta ... tccattacagCTGTGGTGAACACCATTGGAAGAATCGTATGTAAAACTGTAGAACAG
EST: gi|88475803|gb|CI413074.1|CI413074
EST:     TCCCGGTTTTGTTGGAACCAACCTATTCAAGAACTGGACTATGGCTAATG                         CTGTGGTGAACACCATTGGAAGAATCGTATGTAAAACTGTAGAACAG
genomic: TCCCGGTTTTGTTGGAACCAACCTATTCAAGAACTGGACTATGGCTAATGgtaatcccta ... tccattacagCTGTGGTGAACACCATTGGAAGAATCGTATGTAAAACTGTAGAACAG
EST: gi|86842409|gb|CI335295.1|CI335295
EST:     TCCCGGTTTTGTTGGAACCAACCTATTCAAGAACTGGACTATGGCTAATG                         CTGTGGTGAACACCATTGGAAGAATCGTATGTAAAACTGTAGAACAG
genomic: TCCCGGTTTTGTTGGAACCAACCTATTCAAGAACTGGACTATGGCTAATGgtaatcccta ... tccattacagCTGTGGTGAACACCATTGGAAGAATCGTATGTAAAACTGTAGAACAG
EST: gi|86835581|gb|CI348038.1|CI348038
EST:     TCCCGGTTTTGTTGGAACCAACCTATTCAAGAACTGGACTATGGCTAATG                         CTGTGGTGAACACCATTGGAAGAATCGTATGTAAAACTGTAGAACAG
genomic: TCCCGGTTTTGTTGGAACCAACCTATTCAAGAACTGGACTATGGCTAATGgtaatcccta ... tccattacagCTGTGGTGAACACCATTGGAAGAATCGTATGTAAAACTGTAGAACAG
EST: gi|88465137|gb|CI517306.1|CI517306
EST:     GAACTGGACTATGGCTAATG                         CTGTGGTGGACACCATTGGAAGAATCGTATGTAAAACTGTAGAACAG
genomic: GAACTGGACTATGGCTAATGgtaatcccta ... tccattacagCTGTGGTGAACACCATTGGAAGAATCGTATGTAAAACTGTAGAACAG
EST: gi|86864259|gb|CI334058.1|CI334058
EST:     TCCCGGTTTTGTTGGAACCAACCTATTCAAGAACTGGACTATGGCTAATG                         CTGTGGTGAACACCATTGGAAGAATCGTATGTAAAACTGTAGAACAG
genomic: TCCCGGTTTTGTTGGAACCAACCTATTCAAGAACTGGACTATGGCTAATGgtaatcccta ... tccattacagCTGTGGTGAACACCATTGGAAGAATCGTATGTAAAACTGTAGAACAG
EST: gi|88531802|gb|CI460315.1|CI460315
EST:     TCCCGGTTTTGTTGGAACCAACCTATTCAAGAACTGGACTATGGGTAATG                         CTGTGGTGAACACCATTGGAAGAATGGTATGTAAAACTGTAGAACAG
genomic: TCCCGGTTTTGTTGGAACCAACCTATTCAAGAACTGGACTATGGCTAATGgtaatcccta ... tccattacagCTGTGGTGAACACCATTGGAAGAATCGTATGTAAAACTGTAGAACAG
EST: gi|88506009|gb|CI433515.1|CI433515
EST:     TCCCGGTTTTGTTGGAACCAACCTATTCAAGAACTGGACTATGGCTAATG                         CTGTGGTGAACACCATTGGAAGAATCGTATGTAAAACTGTAGAACAG
genomic: TCCCGGTTTTGTTGGAACCAACCTATTCAAGAACTGGACTATGGCTAATGgtaatcccta ... tccattacagCTGTGGTGAACACCATTGGAAGAATCGTATGTAAAACTGTAGAACAG
EST: gi|38477927|gb|CF962060.1|CF962060
EST:     TCCCGGTTTTGTTGGAACCAACCTGTTCAAGAACTGGACTATGGCTAATG                         CTGTGGTGAACACCATTGGAAGAATCGTATGTAAAACTGTAGAACAG
genomic: TCCCGGTTTTGTTGGAACCAACCTATTCAAGAACTGGACTATGGCTAATGgtaatcccta ... tccattacagCTGTGGTGAACACCATTGGAAGAATCGTATGTAAAACTGTAGAACAG
EST: gi|3764142|gb|AU030642.1|AU030642
EST:     TCCCGGTTTTGTTGGAACCAACCTATTCAAGAACTGGACTATGGCTAATG                         CTGTGGTGAACACCATTGGAAGAATCGTATGTAAAACTGTAGAACAG
genomic: TCCCGGTTTTGTTGGAACCAACCTATTCAAGAACTGGACTATGGCTAATGgtaatcccta ... tccattacagCTGTGGTGAACACCATTGGAAGAATCGTATGTAAAACTGTAGAACAG
EST: gi|88280407|gb|CI401605.1|CI401605
EST:     TCCCGGTTTTGTTGGAACCCACCTATTCAAGAACTGGACTATGGCTAATG                         CTGTGGTGAACACCATTGGAAGAATCGTATGTAAAACTGTAGAACAG
genomic: TCCCGGTTTTGTTGGAACCAACCTATTCAAGAACTGGACTATGGCTAATGgtaatcccta ... tccattacagCTGTGGTGAACACCATTGGAAGAATCGTATGTAAAACTGTAGAACAG
EST: gi|88277245|gb|CI398047.1|CI398047
EST:     TCCCGGTTTTGTTGGAACCAACCTATTCAAGAACTGGACTATGGCTAATN                         CTGTGGTGAACACCATTGGAAGAATCGTATGTAAAACTGTAGAACAG
genomic: TCCCGGTTTTGTTGGAACCAACCTATTCAAGAACTGGACTATGGCTAATGgtaatcccta ... tccattacagCTGTGGTGAACACCATTGGAAGAATCGTATGTAAAACTGTAGAACAG
EST: gi|86832996|gb|CI333595.1|CI333595
EST:     TCCCGGTTTTGTTGGAACCAACCTATTCAAGAACTGGACTATGGCTAATG                         CTGTGGT-AACACCATT-GAAGAATCGTATGTAAAACTGTAGAACAG
genomic: TCCCGGTTTTGTTGGAACCAACCTATTCAAGAACTGGACTATGGCTAATGgtaatcccta ... tccattacagCTGTGGTGAACACCATTGGAAGAATCGTATGTAAAACTGTAGAACAG
EST: gi|88462690|gb|CI517219.1|CI517219
EST:     CAAGAACTGGACTATGGGTAATG                         CTGTGGTGAACACCATTGGAAGAATCGTATGTAAAACTGTAGAACAG
genomic: CAAGAACTGGACTATGGCTAATGgtaatcccta ... tccattacagCTGTGGTGAACACCATTGGAAGAATCGTATGTAAAACTGTAGAACAG
EST: gi|86870124|gb|CI318040.1|CI318040
EST:     ACTGGACTATGGCTAATG                         CTGTGGTGAACACCAGTTGNAAAAATCGTATGTAAAACTGTAGAACAG
genomic: ACTGGACTATGGCTAATGgtaatcccta ... tccattacagCTGTGGTGAACACCA-TTGGAAGAATCGTATGTAAAACTGTAGAACAG
EST: gi|88478793|gb|CI416064.1|CI416064
EST:     TCCCGGTTTTGTTGGAACCAACCTATTCAAGAACTGGACTATGGCTAATG                         CTGTGGTGAACACCATTGGAAGAATCGTATGTAAAACTGTAGAACAG
genomic: TCCCGGTTTTGTTGGAACCAACCTATTCAAGAACTGGACTATGGCTAATGgtaatcccta ... tccattacagCTGTGGTGAACACCATTGGAAGAATCGTATGTAAAACTGTAGAACAG
EST: gi|88525522|gb|CI452377.1|CI452377
EST:     TCCCGGTTTTGTTGGAACCAACCTATTCAAGAACTGGACTATGGCTAATG                         CTGTGGTGAACACCATTGGAAGAATCGTATGTAAAACTGTAGAACAG
genomic: TCCCGGTTTTGTTGGAACCAACCTATTCAAGAACTGGACTATGGCTAATGgtaatcccta ... tccattacagCTGTGGTGAACACCATTGGAAGAATCGTATGTAAAACTGTAGAACAG
EST: gi|88286185|gb|CI522485.1|CI522485
EST:     TCCCGGTTTTGTTGGAACCAACCTATTCAAGAACTGGACTATGGCTAATG                         CTGTGGTGAACACCATTGGAAGAATCGTATGTAAAACTGTAGAACAG
genomic: TCCCGGTTTTGTTGGAACCAACCTATTCAAGAACTGGACTATGGCTAATGgtaatcccta ... tccattacagCTGTGGTGAACACCATTGGAAGAATCGTATGTAAAACTGTAGAACAG
EST: gi|86863517|gb|CI345235.1|CI345235
EST:     TCCCGGTTTTGTTGGAACCAACCTATTCAAGAACTGGACTATGGCTAATG                         CTGTGGTGAACACCATTGGAAGAATCGTATGTAAAACTGTAGAACAG
genomic: TCCCGGTTTTGTTGGAACCAACCTATTCAAGAACTGGACTATGGCTAATGgtaatcccta ... tccattacagCTGTGGTGAACACCATTGGAAGAATCGTATGTAAAACTGTAGAACAG
EST: gi|86865757|gb|CI335450.1|CI335450
EST:     TCCCCGTTTTGTTGGAACCAACCTATTCAAGAACTGGACTATGGCTAATG                         CTGTGGTGAACACCATTGGAAGAATCGTATGTAAAACTGTAGAACAG
genomic: TCCCGGTTTTGTTGGAACCAACCTATTCAAGAACTGGACTATGGCTAATGgtaatcccta ... tccattacagCTGTGGTGAACACCATTGGAAGAATCGTATGTAAAACTGTAGAACAG
EST: gi|86841577|gb|CI336520.1|CI336520
EST:     CCCGGTTTTGTTGG-ACCAACCTATTCAAGAACTGGACTAGTGGGTAATC                         CTGTGGTGAACACCATTGGAAGAATCGTATGTAAAAGCTGTAGAACAG
genomic: CCCGGTTTTGTTGGAACCAACCTATTCAAGAACTGGACTA-TGGCTAATGgtaatcccta ... tccattacagCTGTGGTGAACACCATTGGAAGAATCGTATGTAAAA-CTGTAGAACAG
EST: gi|86598223|gb|CI354840.1|CI354840
EST:     TCCCGGTTTTGTTGGAACCAACCTATTCAAGAACTGGACTATGGCTAATG                         CTGTGGTGAACACCATTGGAAGAATCGTATGTAAAACTGTAGAACAG
genomic: TCCCGGTTTTGTTGGAACCAACCTATTCAAGAACTGGACTATGGCTAATGgtaatcccta ... tccattacagCTGTGGTGAACACCATTGGAAGAATCGTATGTAAAACTGTAGAACAG
EST: gi|88277264|gb|CI398066.1|CI398066
EST:     TGTTGGAACCAACCTATTCAAGAACTGGACTATGGCTAATG                         CTGTGGTGGACACCATTGGAAGAATCGTATGTAAAACTGTAGAACAG
genomic: TGTTGGAACCAACCTATTCAAGAACTGGACTATGGCTAATGgtaatcccta ... tccattacagCTGTGGTGAACACCATTGGAAGAATCGTATGTAAAACTGTAGAACAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGAGATGGTGTGAACATTTCAGCAAATGCGATCCATCCCGGTTTTGTTGGAACCAACCTATTCAAGAACTGGACTATGGCTAATGgtaatccctagacctttcaatgcaaaattgttgaagatatttttggaataaattagtagtacttgaagaagcatactcttcaaaatattaatttgggatg

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAC