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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGTCTACGCCATCAACACCGGCGCCGGTGGCGTGTCAGGGCGGACGGGGCCGTTCGACCCGTACTCGGCGCAGATGTTCTCGTCGGCGTCCAGATTGGCGgtaaggacagcatctttgacactgctactgctagtattgccccttctgtcctcattctcttgctaattaatgatacctttgtatacaaaaacgtgcaaat...

Basic information

species Oryza sativa
transcript LOC_Os01g64170.3
intron # 2
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|218497333|gb|FG955293.1|FG955293
EST:     CGTTCGACCCGTACTCGGCGCAGATGTTCTCGTCGGCGTCCAGATTGGCG                         ATGACGTCTGGGATGGGGGTAGTTGTCCTACTCGGCGCATTATTCCTCTGA
genomic: CGTTCGACCCGTACTCGGCGCAGATGTTCTCGTCGGCGTCCAGATTGGCGgtaaggacag ... tcgcttgcagATGACGTCTGGGATGGGGGTAGTTGTCCTACTCGGCGCATTATTCCTCTGA
EST: gi|29643278|gb|CB648285.1|CB648285
EST:     CGTTCGACCCGTACTCGGCGCAGATGTTTTTGTCGGCGTCCAGATTGGCG                         ATGACGTCTGGGATGGGGGTAGTTGTCCTACTCGGCGCATTATTCCTCTGA
genomic: CGTTCGACCCGTACTCGGCGCAGATGTTCTCGTCGGCGTCCAGATTGGCGgtaaggacag ... tcgcttgcagATGACGTCTGGGATGGGGGTAGTTGTCCTACTCGGCGCATTATTCCTCTGA
EST: gi|33680923|gb|CF309162.1|CF309162
EST:     CGTTCGACCCGTACTCGGCGCAGATGTTCTCGTCGGCGTCCAGATTGGCG                         ATGACGTCTGGGATAGGGGGTAGTTGTCCTACTCGGCGCATTATTCCTCTG
genomic: CGTTCGACCCGTACTCGGCGCAGATGTTCTCGTCGGCGTCCAGATTGGCGgtaaggacag ... tcgcttgcagATGACGTCTGGGAT-GGGGGTAGTTGTCCTACTCGGCGCATTATTCCTCTG
EST: gi|33683525|gb|CF311764.1|CF311764
EST:     CGTTCGACCCGTACTCGGCGCAGATGTTCTCGTCGGCGTCCAGATTGGCG                         ATGACGTCTGGGATGGGGGTTAGTTGTCCTACTCGGCGCATTATTCCTCTG
genomic: CGTTCGACCCGTACTCGGCGCAGATGTTCTCGTCGGCGTCCAGATTGGCGgtaaggacag ... tcgcttgcagATGACGTCTGGGATGGGGGT-AGTTGTCCTACTCGGCGCATTATTCCTCTG
EST: gi|13818898|gb|AB060278.1|AB060278
EST:     CGTTCGACCCGTACTCGGCGCAGATGTTCTCGTCGGCGTCCAGATTGGCG                         ATGACGTCTGGGATGGGGGTAGTTGTCCTACTCGGCGCATTATTCCTCTGA
genomic: CGTTCGACCCGTACTCGGCGCAGATGTTCTCGTCGGCGTCCAGATTGGCGgtaaggacag ... tcgcttgcagATGACGTCTGGGATGGGGGTAGTTGTCCTACTCGGCGCATTATTCCTCTGA
EST: gi|58586249|gb|CF984557.1|CF984557
EST:     CGTTCGACCCGTACTCGGCGCAGATGTTCTCGTCGGCGTCCAGATTGGCG                         ATGACGTCTGGGATGGGGGTAGTTGTCCTACTCGGCGCATTATTCCTCTGA
genomic: CGTTCGACCCGTACTCGGCGCAGATGTTCTCGTCGGCGTCCAGATTGGCGgtaaggacag ... tcgcttgcagATGACGTCTGGGATGGGGGTAGTTGTCCTACTCGGCGCATTATTCCTCTGA
EST: gi|58690098|gb|CK078785.1|CK078785
EST:     CTCGTCGGCGT-CAGA-TGGCG                         ATGACGTCTGGGATGGGGGTAGTTGTCCTACTCGGCGCATTATTCCTCTGA
genomic: CTCGTCGGCGTCCAGATTGGCGgtaaggacag ... tcgcttgcagATGACGTCTGGGATGGGGGTAGTTGTCCTACTCGGCGCATTATTCCTCTGA
EST: gi|218499131|gb|FG953787.1|FG953787
EST:     CGTTCGACCCGTACTCGGCGCAGATGTTCTCGTCGGCGTCCAGATTGGCG                         ATGACGTCTGGGATGGGGGTACTTGTCCTAATCGACGCATTATTCCTCTGA
genomic: CGTTCGACCCGTACTCGGCGCAGATGTTCTCGTCGGCGTCCAGATTGGCGgtaaggacag ... tcgcttgcagATGACGTCTGGGATGGGGGTAGTTGTCCTACTCGGCGCATTATTCCTCTGA
EST: gi|218495470|gb|FG968953.1|FG968953
EST:     CGTTCGACCCGTACTCGGCGCAGATGTTCTCGTCGGCGTCCAGATTGGCG                         ATGACGTCTGGGATGGGGGTAGTTGTCCTACTCGGCGCATTATTCCTCTGA
genomic: CGTTCGACCCGTACTCGGCGCAGATGTTCTCGTCGGCGTCCAGATTGGCGgtaaggacag ... tcgcttgcagATGACGTCTGGGATGGGGGTAGTTGTCCTACTCGGCGCATTATTCCTCTGA
EST: gi|218501299|gb|FG964613.1|FG964613
EST:     CGTTCGACCCGTACTCGGCGCAGATGTTCTCGTCGGCGTCCAGATTGGCG                         ATGACGTCTGGGATGGGGGTAGTTGTCCTACTCGGCGCATT
genomic: CGTTCGACCCGTACTCGGCGCAGATGTTCTCGTCGGCGTCCAGATTGGCGgtaaggacag ... tcgcttgcagATGACGTCTGGGATGGGGGTAGTTGTCCTACTCGGCGCATT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGTCTACGCCATCAACACCGGCGCCGGTGGCGTGTCAGGGCGGACGGGGCCGTTCGACCCGTACTCGGCGCAGATGTTCTCGTCGGCGTCCAGATTGGCGgtaaggacagcatctttgacactgctactgctagtattgccccttctgtcctcattctcttgctaattaatgatacctttgtatacaaaaacgtgcaaat

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG