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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTCATAAACGAGACGGTCCGTTTGGCCAACATCGCTCCTGTCATCTTCAGAAAGGCACTTAAAGACATACGGTTCAATGgtgagccccccacaatctgttgatcatgggtccaaaatcatatcttgatgctgctatttaataatgaggtaggagtatgattgatgagctagcaaggctt...

Basic information

species Oryza sativa
transcript LOC_Os04g48210.2
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|88666016|gb|CI716172.1|CI716172
EST:     CATCGCTCCTGTCATCTTCAGAAAGGCACTTAAAGACATACGGTTCAATG                         GATACACAATTCCAGCAGGATGGGGAGTGATGGTCTGTCCACCAGCAGTGC
genomic: CATCGCTCCTGTCATCTTCAGAAAGGCACTTAAAGACATACGGTTCAATGgtgagccccc ... ttggtgacagGATACACAATTCCAGCAGGATGGGGAGTGATGGTCTGTCCACCAGCAGTGC
EST: gi|88671466|gb|CI725582.1|CI725582
EST:     CATCGCTCCTGTCATCTTCAGAAAGGCACTTAAAGACATACGGTTCAATG                         GATACACAATTCCAGCAGGATGGGGAGTGATGGTCTGTCCACCAGCAGTGC
genomic: CATCGCTCCTGTCATCTTCAGAAAGGCACTTAAAGACATACGGTTCAATGgtgagccccc ... ttggtgacagGATACACAATTCCAGCAGGATGGGGAGTGATGGTCTGTCCACCAGCAGTGC
EST: gi|88972545|gb|CI717285.1|CI717285
EST:     CATCGCTCCTGTCATCTTCAGAAAGGCACTTAAAGACATACGGTTCAATG                         GATACACAATTCCAGCAGGATGGGGAGTGATGGTCTGTCCACCAGCAGTGC
genomic: CATCGCTCCTGTCATCTTCAGAAAGGCACTTAAAGACATACGGTTCAATGgtgagccccc ... ttggtgacagGATACACAATTCCAGCAGGATGGGGAGTGATGGTCTGTCCACCAGCAGTGC
EST: gi|88688393|gb|CI731969.1|CI731969
EST:     CATCGCTCCTGTCATCTTCAGAAAGGCACTTAAAGACATACGGTTCAATG                         GATACACAATTCCAGCAGGATGGGGAGTGATGGTCTGTCCACCAGCAGTGC
genomic: CATCGCTCCTGTCATCTTCAGAAAGGCACTTAAAGACATACGGTTCAATGgtgagccccc ... ttggtgacagGATACACAATTCCAGCAGGATGGGGAGTGATGGTCTGTCCACCAGCAGTGC
EST: gi|88691724|gb|CI733802.1|CI733802
EST:     ATACGGTTCAATG                         GATACACAATTCCAGCAGGATGGGGAGTGATGGTCTGTCCACCAGCAGTGC
genomic: ATACGGTTCAATGgtgagccccc ... ttggtgacagGATACACAATTCCAGCAGGATGGGGAGTGATGGTCTGTCCACCAGCAGTGC
EST: gi|88693843|gb|CI735420.1|CI735420
EST:     ATACGGTTCAATG                         GATACACAATTCCAGCAGGATGGGGAGTGATGGTCTGTCCACCAGCAGTGC
genomic: ATACGGTTCAATGgtgagccccc ... ttggtgacagGATACACAATTCCAGCAGGATGGGGAGTGATGGTCTGTCCACCAGCAGTGC
EST: gi|88693862|gb|CI735439.1|CI735439
EST:     CATCGCTCCTGTCATCTTCAGAAAGGCACTTAAAGACATACGGTTCAATG                         GATACACAATTCCAGCAGGATGGGGAGTGATGGTCTGTCCACCAGCAGTGC
genomic: CATCGCTCCTGTCATCTTCAGAAAGGCACTTAAAGACATACGGTTCAATGgtgagccccc ... ttggtgacagGATACACAATTCCAGCAGGATGGGGAGTGATGGTCTGTCCACCAGCAGTGC
EST: gi|88672624|gb|CI726740.1|CI726740
EST:     CATCGCTCCTGTCATCTTCAGAAAGGCACTTAAAGACATACGGTCCAATG                         GATACACAATTCCAGNAGGATGGGGAGTGATGGTCTGTCCACCACCAGTGC
genomic: CATCGCTCCTGTCATCTTCAGAAAGGCACTTAAAGACATACGGTTCAATGgtgagccccc ... ttggtgacagGATACACAATTCCAGCAGGATGGGGAGTGATGGTCTGTCCACCAGCAGTGC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTCATAAACGAGACGGTCCGTTTGGCCAACATCGCTCCTGTCATCTTCAGAAAGGCACTTAAAGACATACGGTTCAATGgtgagccccccacaatctgttgatcatgggtccaaaatcatatcttgatgctgctatttaataatgaggtaggagtatgattgatgagctagcaaggctt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cccccac