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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgctgttcaacttttctcaatgactatgtgcagacttggccgcaattttctcagttgattagaaatttgagcaaatttgttgaattcttctggtttctgtttagcacagtttgttttattatcgtctgtctgtcataatggtgaattagttatgtctatgttaaactgaaaatattattttatgatgattgcagATCACACAGGTTTATGGATTCTACGACGAATGTTTACGAAA

Basic information

species Oryza sativa
transcript LOC_Os03g07150.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g07150.1 (Oryza sativa), 3'ss of exon 5
lower sequence: GRMZM2G420926_T03 (Zea mays), 3'ss of exon 4
gtgctgttcaacttttctcaatgactatgtgcagacttggccgcaattttctcagttgattagaaatttgagcaaatttgttgaattcttctggtttctgtttagcacagtttgttttattatcgtctgtctgtcataatggtgaatta-gttatgtctatgttaaactgaaaatattattttatgatgattgcagATCACACAGGTTTATGGATTCTACGACGAATGTTTACGAAA
                                                                                             |  | || || ||  |  |  |||   |  | ||  | | | || ||  |   ||  ||  | |||   | ||||||||| | |||||||||| |    ||||||||||||||| ||||||||||||||||||||  |||||||
------------------------------------------------------------------------------------------tcagaatttgctttgctta--taatttagatggcatccctat-taatcatcatttcttgtgtgctttctggttcaaactgaaactcttattttatggt---cgcagATCACACAGGTGTATGGATTCTACGACGAATGCCTACGAAA

upper sequence: LOC_Os03g07150.1 (Oryza sativa), 3'ss of exon 5
lower sequence: GRMZM2G112793_T01 (Zea mays), 3'ss of exon 5
gtgctgttcaacttttctcaatgactatgtgcagacttggccgcaattttctcagttgattagaaatttgagcaaatttgttgaattcttctggtttctgtttagcacagtttgtttta-ttatcgtctgtctgtcataatggtgaattagttatgtctatgttaaactgaaaatattattttatgatgattgcagATCACACAGGTTTATGGATTCTACGACGAATGTTTACGAAA
                                                                                         || | |||||||  ||   | |||  |||  |||| || |   || |  |    ||  ||| | ||   |   |  || ||||| | |||||||||| |   |||||||||||||||| ||||||||||| ||||||||| |||| ||
---------------------------------------------------------------------------------------tatcggttttctgtccag---aatttactttgcttatagtttagatgcc-catccctg--ttaatgatcatttgttccaattgaaactcttattttatggt---tgcagATCACACAGGTGTATGGATTCTATGACGAATGTCTACGCAA
















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|58689724|gb|CK078411.1|CK078411
EST:     AGAGCCGGCAG                         ATCACACAGGTTTATGGATTCTACGACGAATGTTTACGAAA
genomic: AGAGCCGGCAGgtgctgttca ... atgattgcagATCACACAGGTTTATGGATTCTACGACGAATGTTTACGAAA
EST: gi|33678071|gb|CF306310.1|CF306310
EST:     GTCACCCACATCGGATTACAATCCTTCGCGGAAATCACGAGAGCCGGCAG                         ATCACACAGGTTTATGGATTCTACGACGAATGTTTACGAAA
genomic: GTCACCCACATCGGATTACAATCCTTCGCGGAAATCACGAGAGCCGGCAGgtgctgttca ... atgattgcagATCACACAGGTTTATGGATTCTACGACGAATGTTTACGAAA
EST: gi|29638619|gb|CB643628.1|CB643628
EST:     GTCACCCACATCGGATTACAATCCTTCGCGGAAATCACGAGAGCCGGCAG                         ATCACACAGGTTTATGGATTCTACGACGAATGTTTACGAAA
genomic: GTCACCCACATCGGATTACAATCCTTCGCGGAAATCACGAGAGCCGGCAGgtgctgttca ... atgattgcagATCACACAGGTTTATGGATTCTACGACGAATGTTTACGAAA
EST: gi|218480610|gb|FG959508.1|FG959508
EST:     GTCACCCACATCGGATTACAATCCTTCGCGGAAATCACGAGAGCCGGCAG                         ATCACACAGGTTTATGGATTCTACGACGAACTGTTTACGAAA
genomic: GTCACCCACATCGGATTACAATCCTTCGCGGAAATCACGAGAGCCGGCAGgtgctgttca ... atgattgcagATCACACAGGTTTATGGATTCTACGACGAA-TGTTTACGAAA
EST: gi|218485818|gb|FG963200.1|FG963200
EST:     GTCACCCACATCGGATTACAATCCTTCGCGGAAATCACGAGAGCCGGCAG                         ATCACACAGGTTTATGGATTCTACGACGAATGTTTACGAAA
genomic: GTCACCCACATCGGATTACAATCCTTCGCGGAAATCACGAGAGCCGGCAGgtgctgttca ... atgattgcagATCACACAGGTTTATGGATTCTACGACGAATGTTTACGAAA
EST: gi|29617800|gb|CB622812.1|CB622812
EST:     GTCACCCACATCGGATTACGATCCTTCGCGGAAATCACGAGAGCCGGCAG                         ATCACACACGTTTATGGATTCTACGACGAATGTTTACCAAA
genomic: GTCACCCACATCGGATTACAATCCTTCGCGGAAATCACGAGAGCCGGCAGgtgctgttca ... atgattgcagATCACACAGGTTTATGGATTCTACGACGAATGTTTACGAAA
EST: gi|4880937|gb|AU065236.1|AU065236
EST:     GTCACCCACATCGGATTACAATCCTTCGCGGAAATCACGAGAGCCGGCAG                         ATCACACAGGTTTATGGATTCTACGACGAATGTTTACGAAA
genomic: GTCACCCACATCGGATTACAATCCTTCGCGGAAATCACGAGAGCCGGCAGgtgctgttca ... atgattgcagATCACACAGGTTTATGGATTCTACGACGAATGTTTACGAAA
EST: gi|29682371|gb|CB678646.1|CB678646
EST:     GTCACCCACATCGGATTACAATCCTTCGCGGAAATCACGAGAGCCGGCAG                         ATCACACAGGTTTATGGATTCTACGACGAATGTTTACGAAA
genomic: GTCACCCACATCGGATTACAATCCTTCGCGGAAATCACGAGAGCCGGCAGgtgctgttca ... atgattgcagATCACACAGGTTTATGGATTCTACGACGAATGTTTACGAAA
EST: gi|29615298|gb|CB620310.1|CB620310
EST:     GTCACCCACATCGGATTACAATCCTTCGCGGAAATCACGAGAGCCGGCAG                         ATCACACAGGTTTATGGATTCTACGACGAATGTTTACGAAA
genomic: GTCACCCACATCGGATTACAATCCTTCGCGGAAATCACGAGAGCCGGCAGgtgctgttca ... atgattgcagATCACACAGGTTTATGGATTCTACGACGAATGTTTACGAAA
EST: gi|58680593|gb|CK069280.1|CK069280
EST:     GTCACCCACATCGGATTACAATCCTTCGCGGAAATCACGAGAGCCGGCAG                         ATCACACAGGTTTATGGATTCTACGACGAATGTTTACGAAA
genomic: GTCACCCACATCGGATTACAATCCTTCGCGGAAATCACGAGAGCCGGCAGgtgctgttca ... atgattgcagATCACACAGGTTTATGGATTCTACGACGAATGTTTACGAAA
EST: gi|58679325|gb|CK068012.1|CK068012
EST:     GTCACCCACATCGGATTACAATCCTTCGCGGAAATCACGAGAGCCGGCAG                         ATCACACAGGTTTATGGATTCTACGACGAATGTTTACGAAA
genomic: GTCACCCACATCGGATTACAATCCTTCGCGGAAATCACGAGAGCCGGCAGgtgctgttca ... atgattgcagATCACACAGGTTTATGGATTCTACGACGAATGTTTACGAAA
EST: gi|58665829|gb|CK054515.1|CK054515
EST:     GTCACCCACATCGGATTACAATCCTTCGCGGAAATCACGAGAGCCGGCAG                         ATCACACAGGTTTATGGATTCTACGACGAATGTTTACGAAA
genomic: GTCACCCACATCGGATTACAATCCTTCGCGGAAATCACGAGAGCCGGCAGgtgctgttca ... atgattgcagATCACACAGGTTTATGGATTCTACGACGAATGTTTACGAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggtgaattagttatgtctatgttaaactgaaaatattattttatgatgattgcagATCACACAGGTTTATGGATTCTACGACGAATGTTTACGAAA
          ttatgtctatgttaaa  TA-rich tract