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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatctacattgtatctttacaatctttcagtatttaatattaggacatcttctgtgttgatatataacaatcaaatcctattgcagTGTTGAATATATAGTTGATCTGATGGGAGCTCCAGGCACATTAATCCCTTCAGATATTTCTGGCAGTCAGTTTCAGGACTCCAACAATAGTCAACTGAGC

Basic information

species Oryza sativa
transcript LOC_Os02g12810.3
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g12810.3 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G413069_T01 (Zea mays), 3'ss of exon 2
-----------gtatctacattgtatctttacaatctttcagtatttaatattaggacatcttctg----tgttgatatataacaatcaaatcctattgcagTGTTGAATATATAGTTGATCTGATGGGAGCTCCAGGCACATTAATCCCTTCAGATATTTCTGGCAGTCAGTTTCAGGACTCCAACAATAGTCAACTGAGC
                 |      |    || | | || ||| | | ||||||  || ||  |       | || |  |     | |  ||| |  ||||||  | ||||||||  ||||| ||||||||||||||||||| |||||||||||||| |||||||| |||||||||||||||||||||||||| ||| |||||
gaccaacaaaaagggaaaagaaagagaaataaactgttgcagcactgaatattttgatattgttcacaactattaaccttatgtactgtaattc--ttgcagCATGGAATATATTATTGATTTGATGGGAGCTCCAGGCACCTTAATCCCTTCAGACATTTCTGGGAGTCAGTTTCAGGACTCCAACAATAGCCAATTGAGC
















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|29623219|gb|CB628230.1|CB628230
EST:     ACGGGGACAGATGAAGGGGCTATTAACTTGGTTAAAATTGATTTTGACAG                         TGTTGAATATATAGTTGATCTGATGGGAGCTCCAGGCACATTAATCCCTTC
genomic: ACGGGGACAGATGAAGGGGCTATTAACTTGGTTAAAATTGATTTTGACAGgtatctacat ... cctattgcagTGTTGAATATATAGTTGATCTGATGGGAGCTCCAGGCACATTAATCCCTTC
EST: gi|29630253|gb|CB635262.1|CB635262
EST:     ACGGGGACAGATGAAGGGGCTATTAACTTGGTTAAAATTGATTTTGACAG                         TGTTGAATATATAGTTGATCTGATGGGAGCTCCAGGCACATTAATCCCTTC
genomic: ACGGGGACAGATGAAGGGGCTATTAACTTGGTTAAAATTGATTTTGACAGgtatctacat ... cctattgcagTGTTGAATATATAGTTGATCTGATGGGAGCTCCAGGCACATTAATCCCTTC
EST: gi|29689392|gb|CB685667.1|CB685667
EST:     ACGGGGACAGATGAAGGGGCTATTAACTTGGTTAAAATTGATTTTGACAG                         TGTTGAATATATAGTTGATCTGATGGGAGCTCCAGGCACATTAATCCCTTC
genomic: ACGGGGACAGATGAAGGGGCTATTAACTTGGTTAAAATTGATTTTGACAGgtatctacat ... cctattgcagTGTTGAATATATAGTTGATCTGATGGGAGCTCCAGGCACATTAATCCCTTC
EST: gi|66932165|gb|CX119013.1|CX119013
EST:     AGGGGCTATTAACTTGGTTAAAATTGATTTTGACAG                         TGTTGAATATATAGTTGATCTGATGGGAGCTCCAGGCACATTAATCCCTTC
genomic: AGGGGCTATTAACTTGGTTAAAATTGATTTTGACAGgtatctacat ... cctattgcagTGTTGAATATATAGTTGATCTGATGGGAGCTCCAGGCACATTAATCCCTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atttaatattaggacatcttctgtgttgatatataacaatcaaatcctattgcagTGTTGAATATATAGTTGATCTGATGGGAGCTCCAGGCACATTAATCCCTTCAGATATTTCTGGCAGTCAGTTTCAGGACTCCAACAATAGTCAACTGAGC
                              atataac  putative branch site (score: 3)
                                            tcctatt  putative PPT
                            atatataacaatcaaa  TA-rich tract