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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTAGCCCATCAGATCCCAAAACTTTTCCATTCATCTTACTTGGGAACAAGATTGACGTAGATGGAGGGAAAAGCAGAGTGgtgagtttctcaagtatactatcaacttttgcctctatatgtgggactacatacttactattcacacag

Basic information

species Oryza sativa
transcript LOC_Os01g51700.1
intron # 5
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|88240343|gb|CI239505.1|CI239505
EST:     TCATCTTACTTGGGAACAAGATTGACGTAGATGGAGGGAAAAGCAGAGTG                         GTTTCTGAGAAAAAAGCAATGGAGTGGTGTTCATCCAAAGGCAATATTCCT
genomic: TCATCTTACTTGGGAACAAGATTGACGTAGATGGAGGGAAAAGCAGAGTGgtgagtttct ... attcacacagGTTTCTGAGAAAAAAGCAATGGAGTGGTGTTCATCCAAAGGCAATATTCCT
EST: gi|58693252|gb|CK081939.1|CK081939
EST:     TCATCTTACTTGGGAACAAGATTGACGTAGATGGAGGGAAAAGCAGAGTG                         GTTTCTGAGAAAAAAGCAATGGAGTGGTGTTCATCCAA
genomic: TCATCTTACTTGGGAACAAGATTGACGTAGATGGAGGGAAAAGCAGAGTGgtgagtttct ... attcacacagGTTTCTGAGAAAAAAGCAATGGAGTGGTGTTCATCCAA
EST: gi|163925455|gb|EG711568.1|EG711568
EST:     TCATCTTACTTGGGAACAAGATTGACGTAGATGGAGGGAAAAGCAGAGTG                         GTTTCTGGGAAAAAAGCAATGGAGTGGTGTTCATCCAAAGGCAATATTCCT
genomic: TCATCTTACTTGGGAACAAGATTGACGTAGATGGAGGGAAAAGCAGAGTGgtgagtttct ... attcacacagGTTTCTGAGAAAAAAGCAATGGAGTGGTGTTCATCCAAAGGCAATATTCCT
EST: gi|88216758|gb|CI216607.1|CI216607
EST:     TCTTACTTGGGAACAAGATTGACGTAGATGGAGGGAAAAGCAGAGTG                         GTTTCTGAGAAAAAAGCAATGGAGTGGTGTTCATCCAAAGGCAATATTCCT
genomic: TCTTACTTGGGAACAAGATTGACGTAGATGGAGGGAAAAGCAGAGTGgtgagtttct ... attcacacagGTTTCTGAGAAAAAAGCAATGGAGTGGTGTTCATCCAAAGGCAATATTCCT
EST: gi|87032794|gb|CI268289.1|CI268289
EST:     TCATCTTACTTGGGAACAAGATTGACGTAGATGGAGGGAAAAGCAGAGTG                         GTTTCTGAGAAAAAAGCAATGGAGTGGTGTTCATCCAAAGGCAATATTCCT
genomic: TCATCTTACTTGGGAACAAGATTGACGTAGATGGAGGGAAAAGCAGAGTGgtgagtttct ... attcacacagGTTTCTGAGAAAAAAGCAATGGAGTGGTGTTCATCCAAAGGCAATATTCCT
EST: gi|87035544|gb|CI190166.1|CI190166
EST:     TCATCTTACTTGGGAACAAGATTGACGTAGATGGAGGGAAAAGCAGAGTG                         GTTTCTGAGAAAAAAGCAATGGAGTGGTGTTCATCCAAAGGCAATATTCCT
genomic: TCATCTTACTTGGGAACAAGATTGACGTAGATGGAGGGAAAAGCAGAGTGgtgagtttct ... attcacacagGTTTCTGAGAAAAAAGCAATGGAGTGGTGTTCATCCAAAGGCAATATTCCT
EST: gi|27576487|gb|CA999181.1|CA999181
EST:     TCATCTTACTTGGGAACAAGATTGACGTAGATGGAGGGAAAAGCAGAGTG                         GTTTCTGAGAAAAAAGCAATGGAGTGGTGTTCATCCAAAGGCAATATTCCT
genomic: TCATCTTACTTGGGAACAAGATTGACGTAGATGGAGGGAAAAGCAGAGTGgtgagtttct ... attcacacagGTTTCTGAGAAAAAAGCAATGGAGTGGTGTTCATCCAAAGGCAATATTCCT
EST: gi|87035485|gb|CI190107.1|CI190107
EST:     TCATCTTACTTGGGAACAAGATTGACGTAGATGGAGGGAAAAGCAGAGTG                         GTTTCTGAGAAAAAAGCAATGGAGTGGTGTTCATCCAAAGGCAATATTCCT
genomic: TCATCTTACTTGGGAACAAGATTGACGTAGATGGAGGGAAAAGCAGAGTGgtgagtttct ... attcacacagGTTTCTGAGAAAAAAGCAATGGAGTGGTGTTCATCCAAAGGCAATATTCCT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCTAGCCCATCAGATCCCAAAACTTTTCCATTCATCTTACTTGGGAACAAGATTGACGTAGATGGAGGGAAAAGCAGAGTGgtgagtttctcaagtatactatcaacttttgcctctatatgtgggactacatacttactattcacacag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG