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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttggcactcttgcttgttcttttacttttacttttcctttggcacctttattaactcgtagttcctatgcgctcagGTTTCAGCAAAGAAGGCCAGAGACTTCCTTCCTTTCTTACAGCGGAACAGAAGACATTCCGCAATTGTTGAATATGTCTTCAGTGGCCACCGTTTCAAAC

Basic information

species Oryza sativa
transcript LOC_Os02g32350.1
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g32350.1 (Oryza sativa), 3'ss of exon 10
lower sequence: GRMZM2G136296_T01 (Zea mays), 3'ss of exon 11
gtttggcactcttgcttgttcttttacttttactttt---cctttggcacctttattaactc------gtagttcctatgcgctcagGTTTCAGCAAAGAAGGCCAGAGACTTCCTTCCTTTCTTACAGCGGAACAGAAGACATTCCGCAATTGTTGAATATGTCTTCAGTGGCCACCGTTTCAAAC
||  |  |   |   || |||  | | ||  | |||       |  ||  | | ||||||        || || | |||  |   |||| || ||||||||||||| ||| |||||||| ||||| ||| |||||||||| ||||| ||  ||||||||||||| || |||||||| || |||||||
gtacgtgatattcatttattccatcagttcgattttgatattctctgcgtcatcattaacctatcagtgtggtccttatatggatagGTATCTGCAAAGAAGGCCAAAGATTTCCTTCCCTTCTTGCAGAGGAACAGAAGGCATTCTGCCGTTGTTGAATATGTTTTTAGTGGCCATCGGTTCAAAC

upper sequence: LOC_Os02g32350.1 (Oryza sativa), 3'ss of exon 10
lower sequence: AC207890.3_FGT002 (Zea mays), 3'ss of exon 10
gtttggcactcttgcttgttcttttacttttacttttcctttggcacctttattaactc---gtagttcctatgcgctcagGTTTCAGCAAAGAAGGCCAGAGACTTCCTTCCTTTCTTACAGCGGAACAGAAGACATTCCGCAATTGTTGAATATGTCTTCAGTGGCCACCGTTTCAAAC
  |  |   | || |      ||| | ||| |  ||| ||    || | |||     ||   || || | |    ||  |||| || ||||||||||||| ||| || ||||| ||||| |||||||||||||| ||||| || || ||||||||||| || |||||||| || |||||||
-gtaagtgatgtttccgtcaatttgattttgatattttctgcatcatcattaacctatcagtgtggtccttgcatgcatagGTATCTGCAAAGAAGGCCAAAGATTTTCTTCCCTTCTTGCAGCGGAACAGAAGGCATTCGGCCATCGTTGAATATGTTTTTAGTGGCCATCGGTTCAAAC
















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|88392637|gb|CI625459.1|CI625459
EST:     TTCATTCTGCAAAAGAATCACCTGTCATGCACATAACAGACTTGACAACG                         GTTTCAGCAAAGAAGGC
genomic: TTCATTCTGCAAAAGAATCACCTGTCATGCACATAACAGACTTGACAACGgtttggcact ... atgcgctcagGTTTCAGCAAAGAAGGC
EST: gi|218501667|gb|FG956183.1|FG956183
EST:     TTCATTCTGCAAAAGAATCACCTGTCATGCACATAACAGACTTGACAACG                         GTTTCAGCAAAGAAGGCCAGAGACTTCCTTCCTTTCTTACAGCGGAACAGA
genomic: TTCATTCTGCAAAAGAATCACCTGTCATGCACATAACAGACTTGACAACGgtttggcact ... atgcgctcagGTTTCAGCAAAGAAGGCCAGAGACTTCCTTCCTTTCTTACAGCGGAACAGA
EST: gi|29622581|gb|CB627592.1|CB627592
EST:     TTCATTCTGCAAAAGAATCACCTGTCATGCACATAACAGACTTGACAACG                         GTTTCAGCAAAGAAGGCCAGAGACTTCCTTCCTTTCTTACAGCGGAACAGA
genomic: TTCATTCTGCAAAAGAATCACCTGTCATGCACATAACAGACTTGACAACGgtttggcact ... atgcgctcagGTTTCAGCAAAGAAGGCCAGAGACTTCCTTCCTTTCTTACAGCGGAACAGA
EST: gi|29674464|gb|CB670739.1|CB670739
EST:     TTCATTCTGCAAAAGAATCACCTGTCATGCACATAACAGACTTGACAACG                         GTTTCAGCAAAGAAGGCCAGAGACTTCCTTCCTTTCTTACAGCGGAACAGA
genomic: TTCATTCTGCAAAAGAATCACCTGTCATGCACATAACAGACTTGACAACGgtttggcact ... atgcgctcagGTTTCAGCAAAGAAGGCCAGAGACTTCCTTCCTTTCTTACAGCGGAACAGA
EST: gi|33795444|gb|CF323592.1|CF323592
EST:     TTCATTCTGCAAAAGAATCACCTGTCATGCACATAACAGACTTGACAACG                         GTTTCAGCAAAGAAGGCCAGAGACTTCCTTCCTTTCTTACAGCGGAACAGA
genomic: TTCATTCTGCAAAAGAATCACCTGTCATGCACATAACAGACTTGACAACGgtttggcact ... atgcgctcagGTTTCAGCAAAGAAGGCCAGAGACTTCCTTCCTTTCTTACAGCGGAACAGA
EST: gi|33793429|gb|CF322594.1|CF322594
EST:     TTCATTCTGCAAAAGAATCACCTGTCATGCACATAACAGACTTGACAACG                         GTTTCAGCAAAGAAGGCCAGAGACTTCCTTCCTTTCTTACAGCGGAACAGA
genomic: TTCATTCTGCAAAAGAATCACCTGTCATGCACATAACAGACTTGACAACGgtttggcact ... atgcgctcagGTTTCAGCAAAGAAGGCCAGAGACTTCCTTCCTTTCTTACAGCGGAACAGA
EST: gi|29623578|gb|CB628589.1|CB628589
EST:     TTCATTCTGCAAAAGAATCACCTGTCATGCACATAACAGACTTGACAACG                         GTTTCAGCAAAGAAGGCCAGAGACTTCCTTCCTTTCTTACAGCGGAACAGA
genomic: TTCATTCTGCAAAAGAATCACCTGTCATGCACATAACAGACTTGACAACGgtttggcact ... atgcgctcagGTTTCAGCAAAGAAGGCCAGAGACTTCCTTCCTTTCTTACAGCGGAACAGA
EST: gi|88352099|gb|CI626099.1|CI626099
EST:     TTCATTCTGCAAAAGAATCACCTGTCATGCACATAACAGACTTGACAACG                         GTTTCAGCAAAGAAGGCCAGAGACTTCCTTCCTTTCTT
genomic: TTCATTCTGCAAAAGAATCACCTGTCATGCACATAACAGACTTGACAACGgtttggcact ... atgcgctcagGTTTCAGCAAAGAAGGCCAGAGACTTCCTTCCTTTCTT
EST: gi|33796827|gb|CF324278.1|CF324278
EST:     TTCATTCTGCAAAAGAATCACCTGTCATGCACATAACAGACTTGACAACG                         GTTTCAGCAAAGAAGGCCAGAGACTTCCTTCCTTTCTTACAGCGGAACAGA
genomic: TTCATTCTGCAAAAGAATCACCTGTCATGCACATAACAGACTTGACAACGgtttggcact ... atgcgctcagGTTTCAGCAAAGAAGGCCAGAGACTTCCTTCCTTTCTTACAGCGGAACAGA
EST: gi|33795788|gb|CF323763.1|CF323763
EST:     TTCATTCTGCAAAAGAATCACCTGTCATGCACATAACAGACTTGACAACG                         GTTTCAGCAAAGAAGGCCAGAGACTTCCTTCCTTTCTTACAGCGGAACAGA
genomic: TTCATTCTGCAAAAGAATCACCTGTCATGCACATAACAGACTTGACAACGgtttggcact ... atgcgctcagGTTTCAGCAAAGAAGGCCAGAGACTTCCTTCCTTTCTTACAGCGGAACAGA
EST: gi|29627293|gb|CB632304.1|CB632304
EST:     TTCATTCTGCAAAAGAATCACCTGTCATGCACATAACAGACTTGACAACG                         GTTTCAGCAAAGAAGGCCAGAGACTTCCTTCCTTTCTTACAGCGGAACAGA
genomic: TTCATTCTGCAAAAGAATCACCTGTCATGCACATAACAGACTTGACAACGgtttggcact ... atgcgctcagGTTTCAGCAAAGAAGGCCAGAGACTTCCTTCCTTTCTTACAGCGGAACAGA
EST: gi|25800307|gb|CA756268.1|CA756268
EST:     TTCATTCTGCAAAAGAATCACCTGTCATGCACATAACAGACTTGACAACG                         GTTTCAGCAAAGAAGGCCAGAGACTTCCTTCCTTTCTTACAGCGGAACAGA
genomic: TTCATTCTGCAAAAGAATCACCTGTCATGCACATAACAGACTTGACAACGgtttggcact ... atgcgctcagGTTTCAGCAAAGAAGGCCAGAGACTTCCTTCCTTTCTTACAGCGGAACAGA
EST: gi|218500523|gb|FG958817.1|FG958817
EST:     CCTGTCATGCACATAACAGACTTGACAACG                         GTTTCAGCAAAGAAGGCCAGAGACTTCCTTCCTTTCTTACAGCGGAACAGA
genomic: CCTGTCATGCACATAACAGACTTGACAACGgtttggcact ... atgcgctcagGTTTCAGCAAAGAAGGCCAGAGACTTCCTTCCTTTCTTACAGCGGAACAGA
EST: gi|58679279|gb|CK067966.1|CK067966
EST:     TTCATTCTGCAAAAGAAGCACCTGTCATGCACATAACAGACTTGACAACG                         GTTTCAGCAAAGAAGGGCAGAGACTTCCTTCCTTTCTTACAGCGGAACAGA
genomic: TTCATTCTGCAAAAGAATCACCTGTCATGCACATAACAGACTTGACAACGgtttggcact ... atgcgctcagGTTTCAGCAAAGAAGGCCAGAGACTTCCTTCCTTTCTTACAGCGGAACAGA
EST: gi|29644259|gb|CB649266.1|CB649266
EST:     TTCATTCTGCAAAAGAATCACCTGTCATGCACATAACAGACTTGACAACG                         GTTTCAGCAAAGAAGGCCAGAGACTTCCTTCCTTTCTTACAGCGGAACAGA
genomic: TTCATTCTGCAAAAGAATCACCTGTCATGCACATAACAGACTTGACAACGgtttggcact ... atgcgctcagGTTTCAGCAAAGAAGGCCAGAGACTTCCTTCCTTTCTTACAGCGGAACAGA
EST: gi|58692787|gb|CK081474.1|CK081474
EST:     -TCATTCTGCAAAAGAATCACCTGTCATGCACATAACAGACTTGACAACG                         GTTTCAGCAAAGAAGGCCAGAGACTTCCTTCCTTTCTTACAGCGGAACAGA
genomic: TTCATTCTGCAAAAGAATCACCTGTCATGCACATAACAGACTTGACAACGgtttggcact ... atgcgctcagGTTTCAGCAAAGAAGGCCAGAGACTTCCTTCCTTTCTTACAGCGGAACAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttacttttacttttcctttggcacctttattaactcgtagttcctatgcgctcagGTTTCAGCAAAGAAGGCCAGAGACTTCCTTCCTTTCTTACAGCGGAACAGAAGACATTCCGCAATTGTTGAATATGTCTTCAGTGGCCACCGTTTCAAAC
                           tattaac  putative branch site (score: 1)
                                        ttcctat  putative PPT
                         tttattaact  TA-rich tract