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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTTCTTCTCCGAGACCGAGATGGCACTCGACTCTGTTCCATCCTACCCCAGCGATCTTGGATCCAGCAGGGCCAGGACGCCGCAGCAGCAAAGGGTCAGgtacatatctatggctaccattcttttctcctccatcgatttcttgcttgcagcaaagagcctccccatgtgtatgtgtagttcttgatctgtttctctcctttcttcaatttgtggtgggttctgtgatgtgccattgattctgatatggtag

Basic information

species Oryza sativa
transcript LOC_Os12g02420.1
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|58605129|gb|CK033162.1|CK033162
EST:     AGCGATCTTGGATCCAGCAGGGCCAGGACGCCGCAGCAGCAAAGGGTCAG                         CCCCAGGAAGGAGGAGCGGACATGGACGACCGACACCTACGCGCCGTACGA
genomic: AGCGATCTTGGATCCAGCAGGGCCAGGACGCCGCAGCAGCAAAGGGTCAGgtacatatct ... gatatggtagCCCCAGGAAGGAGGAGCGGACATGGACGACCGACACCTACGCGCCGTACGA
EST: gi|58602169|gb|CK012697.1|CK012697
EST:     AGCGATCTTGGATCCAGCAGGGCCAGGACGCCGCAGCAGCAAAGGGTCAG                         CCCCAGGAAGGAGGAGCGGACATGGACGACCGACACCTACGCGCCGTACGA
genomic: AGCGATCTTGGATCCAGCAGGGCCAGGACGCCGCAGCAGCAAAGGGTCAGgtacatatct ... gatatggtagCCCCAGGAAGGAGGAGCGGACATGGACGACCGACACCTACGCGCCGTACGA
EST: gi|88327524|gb|CI646713.1|CI646713
EST:     AGCGATCTTGGATCCAGCAGGGCCAGGACGCCGCAGCAGCAAAGGGTCAG                         CCCCAGGAAGGAGGAGCGGACATGGACGACCGACACCTACGCGCCGTACGA
genomic: AGCGATCTTGGATCCAGCAGGGCCAGGACGCCGCAGCAGCAAAGGGTCAGgtacatatct ... gatatggtagCCCCAGGAAGGAGGAGCGGACATGGACGACCGACACCTACGCGCCGTACGA
EST: gi|33655623|gb|CF278237.1|CF278237
EST:     AGCGATCTTGGATCCAGCAGGGCCAGGACGCCGCAGCAGCAAAGGGTCAG                         CCCCAGGAAGGAGGAGCGGACATGGACGACCGACACCTACGCGCCGTACGA
genomic: AGCGATCTTGGATCCAGCAGGGCCAGGACGCCGCAGCAGCAAAGGGTCAGgtacatatct ... gatatggtagCCCCAGGAAGGAGGAGCGGACATGGACGACCGACACCTACGCGCCGTACGA
EST: gi|33691269|gb|CF319508.1|CF319508
EST:     AGCGATCTTGGATCCAGCAGGGCCAGGACGCCGCAGCAGCAAAGGGTCAG                         -----G-AAGGAGGAGCGGACATGGACGACCGACACCTACGCGCCGTACGA
genomic: AGCGATCTTGGATCCAGCAGGGCCAGGACGCCGCAGCAGCAAAGGGTCAGgtacatatct ... gatatggtagCCCCAGGAAGGAGGAGCGGACATGGACGACCGACACCTACGCGCCGTACGA
EST: gi|33693069|gb|CF321308.1|CF321308
EST:     AGCGATCTTGGATCCAGCAGGGCCAGGACGCCGCAGCAGCAAAGGGTCAG                         CCCCAGGAAGGAGGAGCGGACATGGACGACCGACACCTACGCGCCGTACGA
genomic: AGCGATCTTGGATCCAGCAGGGCCAGGACGCCGCAGCAGCAAAGGGTCAGgtacatatct ... gatatggtagCCCCAGGAAGGAGGAGCGGACATGGACGACCGACACCTACGCGCCGTACGA
EST: gi|58682470|gb|CK071157.1|CK071157
EST:     AGCGATCTTGGATCCAGCAGGGCCAGGACGCCGCAGCAGCAAAGGGTCAG                         CCCCAGGAAGGAGGAGCGGACATGGACGACCGACACCTACGCGCCGTACGA
genomic: AGCGATCTTGGATCCAGCAGGGCCAGGACGCCGCAGCAGCAAAGGGTCAGgtacatatct ... gatatggtagCCCCAGGAAGGAGGAGCGGACATGGACGACCGACACCTACGCGCCGTACGA
EST: gi|33822052|gb|CF336835.1|CF336835
EST:     AGCGATCTTGGATCCAGCAGGGCCAGGACGCCGCAGCAGCAAAGGGTCAG                         CCCCAGGAAGGAGGAGCGGACATGGACGACCGACACCTACGCGCCGTACGA
genomic: AGCGATCTTGGATCCAGCAGGGCCAGGACGCCGCAGCAGCAAAGGGTCAGgtacatatct ... gatatggtagCCCCAGGAAGGAGGAGCGGACATGGACGACCGACACCTACGCGCCGTACGA
EST: gi|33803500|gb|CF327625.1|CF327625
EST:     AGCGATCTTGGATCCAGCAGGGCCAGGACGCCGCAGCAGCAAAGGGTCAG                         CCCCAGGAAGGAGGAGCGGACATGGACGACCGACACCTACGCGCCGTACGA
genomic: AGCGATCTTGGATCCAGCAGGGCCAGGACGCCGCAGCAGCAAAGGGTCAGgtacatatct ... gatatggtagCCCCAGGAAGGAGGAGCGGACATGGACGACCGACACCTACGCGCCGTACGA
EST: gi|55432819|gb|CV729431.1|CV729431
EST:     AGCGATCTTGGATCCATTTTGGCCAGGACGCCGCAGCAGCAAAGGGTCAG                         CCCCAGGAAGGAGGAGCGGACATGGACGACCGACACCTACGCGCCGTACGA
genomic: AGCGATCTTGGATCCAGCAGGGCCAGGACGCCGCAGCAGCAAAGGGTCAGgtacatatct ... gatatggtagCCCCAGGAAGGAGGAGCGGACATGGACGACCGACACCTACGCGCCGTACGA
EST: gi|58602862|gb|CK013390.1|CK013390
EST:     AGCGATCTTGGATCCAGCAGGGCCAGGACGCCGCAGCAGCAAAGGGTCAG                         CCCCAGGAAGGAGGAGCGGACATGGACGACCGACACCTACGCGCCGTACGA
genomic: AGCGATCTTGGATCCAGCAGGGCCAGGACGCCGCAGCAGCAAAGGGTCAGgtacatatct ... gatatggtagCCCCAGGAAGGAGGAGCGGACATGGACGACCGACACCTACGCGCCGTACGA
EST: gi|58600345|gb|CK010873.1|CK010873
EST:     AGCGATCTTGGATCCAGCAGGGCCAGGACGCCGCAGCAGCAAAGGGTCAG                         CCCCAGGAAGGAGGAGCGGACATGGACGACCGACACCTACGCGCCGTACGA
genomic: AGCGATCTTGGATCCAGCAGGGCCAGGACGCCGCAGCAGCAAAGGGTCAGgtacatatct ... gatatggtagCCCCAGGAAGGAGGAGCGGACATGGACGACCGACACCTACGCGCCGTACGA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCTTCTTCTCCGAGACCGAGATGGCACTCGACTCTGTTCCATCCTACCCCAGCGATCTTGGATCCAGCAGGGCCAGGACGCCGCAGCAGCAAAGGGTCAGgtacatatctatggctaccattcttttctcctccatcgatttcttgcttgcagcaaagagcctccccatgtgtatgtgtagttcttgatctgtttctctcctttcttcaatttgtggtgggttctgtgatgtgccattgattctgatatggtag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG