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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtatctagcatgcaaatccatagtcagtttacagttgtttgctcgaataagctggatatatccatgtggtggatattggagcatcaaacttttgaaaatgttctgattttaacatctgaatatgcagGTACAATGTTTTCCAGTATGGCTTTGTGGCTCTTGCGATACTCACACTCTTTTACTATGCAATATTT

Basic information

species Oryza sativa
transcript LOC_Os06g03760.3
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g03760.2 (Oryza sativa), 3'ss of exon 12
lower sequence: GRMZM2G012284_T01 (Zea mays), 3'ss of exon 10
gtatgtatctagcatgcaaatccatagtcagtttacagttgtttgctcgaataagctggatatatccatgtggtggatattggagcatcaaacttttgaaaatgttctgatt-ttaacatctgaatatgcagGTACAATGTTTTCCAGTATGGCTTTGTGGCTCTTGCGATACTCACACTCTTTTACTATGCAATATTT
       |    |   |||||  | ||    |||  ||||| |   |   | | |             ||| || || |||     || ||| ||| ||   | |||||||  || ||  |  || ||||||||||||||||||||||||||||||||| |||||||| || ||||| ||||| |||||||| ||||||
------gttagtctcccaaatgaagagcagattt--agttgctctgttttacagg-------------tgttgtagacatt-----attaaa-tttcgactgtattctgatcctttaccacaaaacatgcagGTACAATGTTTTCCAGTATGGCTTTGTTGCTCTTGCCATCCTCACTCTCTTCTACTATGCTATATTT

upper sequence: LOC_Os06g03760.2 (Oryza sativa), 3'ss of exon 12
lower sequence: GRMZM5G871262_T01 (Zea mays), 3'ss of exon 1
gtatgtatctagcatgcaaatccatagtcagtttacagttgtttgctcgaataagctggatatatccatgtggtggatattggagcatcaaacttttgaaaatgttctgat--tttaacatctgaatatgcagGTACAATGTTTTCCAGTATGGCTTTGTGGCTCTTGCGATACTCACACTCTTTTACTATGCAATATTT
                          || ||| | ||  ||     |  ||| || ||  | | |  |   |||     |  |   ||  ||   |||||  |  | ||||  || |||  |  || ||||||||||||||||||||||||||||||||| |||||||| || ||||||||||| |||||||| ||||||
--------------------------gtgagtct-caaatgaagagtgaaattagttgctt-tgtttaca-ggtattgctgtggatatttaaaacttgaacgtactttgatacttgaaccacaaaacatgcagGTACAATGTTTTCCAGTATGGCTTTGTTGCTCTTGCCATCCTCACACTCTTCTACTATGCTATATTT
















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|88974640|gb|CI022966.1|CI022966
EST:     ATCTTTGGCCACACACTGCAATCTCTCCGTGGAATTAAGTATCTCTACAA                         GTACAATGTTTTCCAGTATGGCTTTGTGGCTCTTGCGATACTCACACTCTT
genomic: ATCTTTGGCCACACACTGCAATCTCTCCGTGGAATTAAGTATCTCTACAAgtatgtatct ... gaatatgcagGTACAATGTTTTCCAGTATGGCTTTGTGGCTCTTGCGATACTCACACTCTT
EST: gi|89176031|gb|CI043052.1|CI043052
EST:     ATCTTTGGCCACACACTGCAATCTCTCCGTGGAATTAAGTATCTCTACAA                         GTACAATGTTTTCCAGTATGGCTTTGTGGCTCTTGCGATACTCACACTCTT
genomic: ATCTTTGGCCACACACTGCAATCTCTCCGTGGAATTAAGTATCTCTACAAgtatgtatct ... gaatatgcagGTACAATGTTTTCCAGTATGGCTTTGTGGCTCTTGCGATACTCACACTCTT
EST: gi|88737037|gb|CI760545.1|CI760545
EST:     ATCTTTGGCCACACACTGCAATCTCTCCGTGGAATTAAGTATCTCTACAA                         GTACAATGTTTTCCAGTATGGCTTTGTGGCTCTTGCGATACTCACACTCTT
genomic: ATCTTTGGCCACACACTGCAATCTCTCCGTGGAATTAAGTATCTCTACAAgtatgtatct ... gaatatgcagGTACAATGTTTTCCAGTATGGCTTTGTGGCTCTTGCGATACTCACACTCTT
EST: gi|87019966|gb|CI299364.1|CI299364
EST:     ATCTTTGGCCACACACTGCAATCTCTCCGTGGAATTAAGTATCTCTACAA                         GTACAATGTTTTCCAGTATGGCTTTGTGGCTCTTGCGATACTCACACTCTT
genomic: ATCTTTGGCCACACACTGCAATCTCTCCGTGGAATTAAGTATCTCTACAAgtatgtatct ... gaatatgcagGTACAATGTTTTCCAGTATGGCTTTGTGGCTCTTGCGATACTCACACTCTT
EST: gi|88471869|gb|CI409140.1|CI409140
EST:     AGTATCTCTACAA                         GTACAATGTTTTCCAGTATGGCTTTGTGGCTCTTGCGATACTCACACTCTT
genomic: AGTATCTCTACAAgtatgtatct ... gaatatgcagGTACAATGTTTTCCAGTATGGCTTTGTGGCTCTTGCGATACTCACACTCTT
EST: gi|88762181|gb|CI771737.1|CI771737
EST:     ATCTTTGGCCACACACTGCAATCTCTCCGTGGAATTAACTATCTCTACAA                         GTACAATGTTTTCCAGTATGGCTTTGTGGCTCTTGCGATACTCACACTCTT
genomic: ATCTTTGGCCACACACTGCAATCTCTCCGTGGAATTAAGTATCTCTACAAgtatgtatct ... gaatatgcagGTACAATGTTTTCCAGTATGGCTTTGTGGCTCTTGCGATACTCACACTCTT
EST: gi|89175363|gb|CI042384.1|CI042384
EST:     TCTCTCCGTGGAATTAAGTATCTCTACAA                         GTACAATGTTTTCCAGTATGGCTTTGTGGCTCTTGCGATACTCACACTCTT
genomic: TCTCTCCGTGGAATTAAGTATCTCTACAAgtatgtatct ... gaatatgcagGTACAATGTTTTCCAGTATGGCTTTGTGGCTCTTGCGATACTCACACTCTT
EST: gi|89176072|gb|CI043093.1|CI043093
EST:     ATCTTTGGCCACACACTGCAATCTCTCCGTGGAATTAAGTATCTCTACAA                         GTACAATGTTTTCCAGTATGGCTTTGTGGCTCTTGCGATACTCACACTCTT
genomic: ATCTTTGGCCACACACTGCAATCTCTCCGTGGAATTAAGTATCTCTACAAgtatgtatct ... gaatatgcagGTACAATGTTTTCCAGTATGGCTTTGTGGCTCTTGCGATACTCACACTCTT
EST: gi|88519661|gb|CI447315.1|CI447315
EST:     TGGCCACACACTGCAATCTCTCCGTGGAATTAAGTATCTCTACAA                         GTACAATGTTTTCCAGTATGGCTTTGTGGCTCTTGCGATACTCACACTCTT
genomic: TGGCCACACACTGCAATCTCTCCGTGGAATTAAGTATCTCTACAAgtatgtatct ... gaatatgcagGTACAATGTTTTCCAGTATGGCTTTGTGGCTCTTGCGATACTCACACTCTT
EST: gi|88907637|gb|CI090431.1|CI090431
EST:     ATCTTNGGCCACACACTGCAATCTCTCCGTGGAATTAAGTATCTCTACAA                         GTACAATGTTTTCCAGTATGGCTTTGTGGCTCTTGCGATACTCACACTCTT
genomic: ATCTTTGGCCACACACTGCAATCTCTCCGTGGAATTAAGTATCTCTACAAgtatgtatct ... gaatatgcagGTACAATGTTTTCCAGTATGGCTTTGTGGCTCTTGCGATACTCACACTCTT
EST: gi|88997561|gb|CI390227.1|CI390227
EST:     ATCTTT-GCCACACACTGCAATCTCTCCGTGGAATTAAGTATCTCTACAA                         GTACAATGTTTTCCAGTATGGCTTTGTGGCTCTTGCGATACTCACACTCTT
genomic: ATCTTTGGCCACACACTGCAATCTCTCCGTGGAATTAAGTATCTCTACAAgtatgtatct ... gaatatgcagGTACAATGTTTTCCAGTATGGCTTTGTGGCTCTTGCGATACTCACACTCTT
EST: gi|58684950|gb|CK073637.1|CK073637
EST:     ATCTTTGGCCACACACTGCAATCTCTCCGTGGAATTAAGTATCTCTACAA                         GTACAATGTTTTCCAGTATGGCT
genomic: ATCTTTGGCCACACACTGCAATCTCTCCGTGGAATTAAGTATCTCTACAAgtatgtatct ... gaatatgcagGTACAATGTTTTCCAGTATGGCT
EST: gi|89163502|gb|CI100392.1|CI100392
EST:     ATCTTTGGCCACACACTGCAATCTCTCCGTGGAATTAAGTATCTCTACAA                         GTACAATGTTTTCCAGTATGGCTTTGTGGCTCTTGCGATACTCACACTCTT
genomic: ATCTTTGGCCACACACTGCAATCTCTCCGTGGAATTAAGTATCTCTACAAgtatgtatct ... gaatatgcagGTACAATGTTTTCCAGTATGGCTTTGTGGCTCTTGCGATACTCACACTCTT
EST: gi|86869332|gb|CI339056.1|CI339056
EST:     ATCTTTGGCCACACACTGCAATCTCTCCGTGGAATTAAGTATCTCTACAA                         GTACAATGTTTTCCAGTATGGCTTTGTGGCTCTTGCGATACTCACACTCTT
genomic: ATCTTTGGCCACACACTGCAATCTCTCCGTGGAATTAAGTATCTCTACAAgtatgtatct ... gaatatgcagGTACAATGTTTTCCAGTATGGCTTTGTGGCTCTTGCGATACTCACACTCTT
EST: gi|86484582|gb|CI127215.1|CI127215
EST:     ATCTTTGGCCACACACTGCAATCTCTCCGTGGAATTAAGTATCTCTACAA                         GTACAATGTTTTCCAGTATGGCTTTGTGGCTCTTGCGATACTCACACTCTT
genomic: ATCTTTGGCCACACACTGCAATCTCTCCGTGGAATTAAGTATCTCTACAAgtatgtatct ... gaatatgcagGTACAATGTTTTCCAGTATGGCTTTGTGGCTCTTGCGATACTCACACTCTT
EST: gi|5667175|gb|AU077435.1|AU077435
EST:     ATCTTTGGCCACACACTGCAATCTCTCCGTGGAATTAAGTATCTCTACAA                         GTACAATGTTTTCCAGTATGGCTTTGTGGCTCTTGCGATACTCACACTCTT
genomic: ATCTTTGGCCACACACTGCAATCTCTCCGTGGAATTAAGTATCTCTACAAgtatgtatct ... gaatatgcagGTACAATGTTTTCCAGTATGGCTTTGTGGCTCTTGCGATACTCACACTCTT
EST: gi|88961963|gb|CI097116.1|CI097116
EST:     ATCTTGGGCCACACACTGCAATCTCTCCGTGGAATTAAGTATCTCTACAA                         GTACAATGTTTTCCAGTATGGCTTTGTGGCTCTTGCGATACTCACACTCTT
genomic: ATCTTTGGCCACACACTGCAATCTCTCCGTGGAATTAAGTATCTCTACAAgtatgtatct ... gaatatgcagGTACAATGTTTTCCAGTATGGCTTTGTGGCTCTTGCGATACTCACACTCTT
EST: gi|55827892|gb|AU063117.2|AU063117
EST:     ATCTTTGGCCACACACTGCAATCTCTCCGTGGAATTAAGTATCTCTACAA                         GTACAATGTTTTCCAGTATGGCTTTGTGGCTCTTGCGATACTCACACTCTT
genomic: ATCTTTGGCCACACACTGCAATCTCTCCGTGGAATTAAGTATCTCTACAAgtatgtatct ... gaatatgcagGTACAATGTTTTCCAGTATGGCTTTGTGGCTCTTGCGATACTCACACTCTT
EST: gi|88284096|gb|CI405542.1|CI405542
EST:     ATCTTTGGCCACACACTGCAATCTCTCCGTGGAATTAAGTATCTCTACAA                         GTACAATGTTTTCCAGTATGGCTTTGTGGCTCTTGCGATACTCACACTCTT
genomic: ATCTTTGGCCACACACTGCAATCTCTCCGTGGAATTAAGTATCTCTACAAgtatgtatct ... gaatatgcagGTACAATGTTTTCCAGTATGGCTTTGTGGCTCTTGCGATACTCACACTCTT
EST: gi|89163461|gb|CI100351.1|CI100351
EST:     ATCTTNGGCCACACACTGCAATCTCTCCGTGGAATTAAGTATCTCTACAA                         GTACAATGTTTTCCAGTATGGCTTTGTGGCTCTTGCGATACTCACACTCTT
genomic: ATCTTTGGCCACACACTGCAATCTCTCCGTGGAATTAAGTATCTCTACAAgtatgtatct ... gaatatgcagGTACAATGTTTTCCAGTATGGCTTTGTGGCTCTTGCGATACTCACACTCTT
EST: gi|29679858|gb|CB676133.1|CB676133
EST:     ATCTTTGGCCACACACTGCAATCTCTCCGTGGAATTAAGTATCTCTACAA                         GTACAATGTTTTCCAGTATGGCTTTGTGGCTCTTGCGATACTCACACTCTT
genomic: ATCTTTGGCCACACACTGCAATCTCTCCGTGGAATTAAGTATCTCTACAAgtatgtatct ... gaatatgcagGTACAATGTTTTCCAGTATGGCTTTGTGGCTCTTGCGATACTCACACTCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atattggagcatcaaacttttgaaaatgttctgattttaacatctgaatatgcagGTACAATGTTTTCCAGTATGGCTTTGTGGCTCTTGCGATACTCACACTCTTTTACTATGCAATATTT
                                  ttttaac  putative branch site (score: 2)
             aaacttttgaaaat  TA-rich tract