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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAAGCATTGCAGCCTTACATGGGTGGAATCGATTTCCTTCCTTTCAAGCTGGATAGCAAACAAGTTGCTCGACTCCAAATCAAATAATCCAAATTCAAAGgtccgtctctacctctaggctctagcaatcccctttctctaacacgtgcaaaactataatctgattttatttttatttgggtcttctcttgacag

Basic information

species Oryza sativa
transcript LOC_Os01g37837.2
intron # 8
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|89180489|gb|CI044768.1|CI044768
EST:     GGATAGCAAACAAGTTGCTCGACTCCAAATCAAATAATCCAAATTCAAAG                         GGAGATGCTATCTGAGCTAGATGAGGAATCAACAAAGATTTTCTTGCTTTC
genomic: GGATAGCAAACAAGTTGCTCGACTCCAAATCAAATAATCCAAATTCAAAGgtccgtctct ... ctcttgacagGGAGATGCTATCTGAGCTAGATGAGGAATCAACAAAGATTTTCTTGCTTTC
EST: gi|86436175|gb|CI117897.1|CI117897
EST:     GGATAGCAAACAAGTTGCTCGACTCCAAATCAAATAATCCCAATTCAAAG                         GGAGATGCTATCTGAGCTAGATGAGGAATCAACAAAGATTTTCTTGCTTTC
genomic: GGATAGCAAACAAGTTGCTCGACTCCAAATCAAATAATCCAAATTCAAAGgtccgtctct ... ctcttgacagGGAGATGCTATCTGAGCTAGATGAGGAATCAACAAAGATTTTCTTGCTTTC
EST: gi|12623127|gb|AU173340.1|AU173340
EST:     GGATAGCAAACAAGTTGCTCGACTCCAAATCAAATAATCCAAATTCAAAG                         GGAGATGCTATNTGAGCTAGATGAGGAATCAACAAAGATTTTNTTGCTTTC
genomic: GGATAGCAAACAAGTTGCTCGACTCCAAATCAAATAATCCAAATTCAAAGgtccgtctct ... ctcttgacagGGAGATGCTATCTGAGCTAGATGAGGAATCAACAAAGATTTTCTTGCTTTC
EST: gi|86484977|gb|CI127610.1|CI127610
EST:     GGATAGCAAACAAGTTGCTCGACTCCAAATCAAATAATCCAAATTCAAAG                         GGAGATGCTATCTGAGCTAGATGAGGAATCAACAAAGATTTTCTTGCTTTC
genomic: GGATAGCAAACAAGTTGCTCGACTCCAAATCAAATAATCCAAATTCAAAGgtccgtctct ... ctcttgacagGGAGATGCTATCTGAGCTAGATGAGGAATCAACAAAGATTTTCTTGCTTTC
EST: gi|27548103|gb|CA766188.2|CA766188
EST:     GGATAGCAAACAAGTTGCTCGACTCCAAATCAAATAATCCAAATTCAAAG                         GGAGATGCTATCTGAGCTAGATGAGGAATCAACAAAGATTTTCTTGCTTTC
genomic: GGATAGCAAACAAGTTGCTCGACTCCAAATCAAATAATCCAAATTCAAAGgtccgtctct ... ctcttgacagGGAGATGCTATCTGAGCTAGATGAGGAATCAACAAAGATTTTCTTGCTTTC
EST: gi|88532291|gb|CI461768.1|CI461768
EST:     GGATAGCAAACAAGTTGCTCGACTCCAAATCAAATAATCCAAATTCAAAG                         GGAGATGCTATCTGAGCTAGATGAGGAATCAACAAAGATTTTCTTGCTTTC
genomic: GGATAGCAAACAAGTTGCTCGACTCCAAATCAAATAATCCAAATTCAAAGgtccgtctct ... ctcttgacagGGAGATGCTATCTGAGCTAGATGAGGAATCAACAAAGATTTTCTTGCTTTC
EST: gi|89196741|gb|CI402495.1|CI402495
EST:     GGATAGCAAACAAGTTGCTCGACTCCAAATCAAATAATCCAAATTCAAAG                         GGAGATGCTATCTGAGCTAGATGAGGAATCAACAAAGATTTTCTTGCTTTC
genomic: GGATAGCAAACAAGTTGCTCGACTCCAAATCAAATAATCCAAATTCAAAGgtccgtctct ... ctcttgacagGGAGATGCTATCTGAGCTAGATGAGGAATCAACAAAGATTTTCTTGCTTTC
EST: gi|89193427|gb|CI050725.1|CI050725
EST:     GGATAGCAAACAAGTTGCTCGACTCCAAATCAAATAATCCGAATTCAAAG                         GGAGATGCTATCTGAGCTAGATGAGGAATCAACAAAGATTTTCTTGCTTTC
genomic: GGATAGCAAACAAGTTGCTCGACTCCAAATCAAATAATCCAAATTCAAAGgtccgtctct ... ctcttgacagGGAGATGCTATCTGAGCTAGATGAGGAATCAACAAAGATTTTCTTGCTTTC
EST: gi|89173717|gb|CI041610.1|CI041610
EST:     GGATAGCAAACAAGTTGCTCGACTCCAAATCAAATAATCCAAATTCAAAG                         GGAGATGCTATCTGAGCTAGATGAGGAATCAACAAAGATTTTCTTGCTTTC
genomic: GGATAGCAAACAAGTTGCTCGACTCCAAATCAAATAATCCAAATTCAAAGgtccgtctct ... ctcttgacagGGAGATGCTATCTGAGCTAGATGAGGAATCAACAAAGATTTTCTTGCTTTC
EST: gi|88245565|gb|CI245414.1|CI245414
EST:     GGATAGCAAACAAGTTGCTCGACTCCAAATCAAATAATCCAAATTCAAAG                         GGAGATGCTATCTGAGCTAGATGAGGAATCAACAAAGATTTTCTTGCTTTC
genomic: GGATAGCAAACAAGTTGCTCGACTCCAAATCAAATAATCCAAATTCAAAGgtccgtctct ... ctcttgacagGGAGATGCTATCTGAGCTAGATGAGGAATCAACAAAGATTTTCTTGCTTTC
EST: gi|66930636|gb|CX117484.1|CX117484
EST:     AAAT-ATCCAAATTC-AAG                         GGAGATGCTATCTGAGCTAGATGAGGAATCAACAAAGATTTTCTTGCTTTC
genomic: AAATAATCCAAATTCAAAGgtccgtctct ... ctcttgacagGGAGATGCTATCTGAGCTAGATGAGGAATCAACAAAGATTTTCTTGCTTTC
EST: gi|88846799|gb|CI373567.1|CI373567
EST:     GGATAGCAAACAAGTTGCTCGACTCCAAATCAAATAATCCAAATTCAAAG                         GGAGATGCTATCTGAGCTAGATGAGGAATCAACAAAGATTTTCTTGCTTTC
genomic: GGATAGCAAACAAGTTGCTCGACTCCAAATCAAATAATCCAAATTCAAAGgtccgtctct ... ctcttgacagGGAGATGCTATCTGAGCTAGATGAGGAATCAACAAAGATTTTCTTGCTTTC
EST: gi|58659708|gb|CK048388.1|CK048388
EST:     GGATAGCAAACAAGTTGCTCGACTCCAAATCAAATAATCCAAATTCAAAG                         GGAGATGCTATCTGAGCTAGATGAGGAATCAACAAAGATTTTCTTGCTTGC
genomic: GGATAGCAAACAAGTTGCTCGACTCCAAATCAAATAATCCAAATTCAAAGgtccgtctct ... ctcttgacagGGAGATGCTATCTGAGCTAGATGAGGAATCAACAAAGATTTTCTTGCTTTC
EST: gi|88511293|gb|CI438799.1|CI438799
EST:     GGATAGCAAACAAGTTGCTCGACTCCAAATCAAATAATCCAAATTCAAAG                         GGAGATGCTATCTGAGCTAGATGAGGAATCAACAAAGATTTTCTTGCTTTC
genomic: GGATAGCAAACAAGTTGCTCGACTCCAAATCAAATAATCCAAATTCAAAGgtccgtctct ... ctcttgacagGGAGATGCTATCTGAGCTAGATGAGGAATCAACAAAGATTTTCTTGCTTTC
EST: gi|88847058|gb|CI001330.1|CI001330
EST:     GGATAGCAAACAAGTTGCTCGACTCCAAATCAAATAATCCAAATTCAAAG                         GGAGATGCTATCTGAGCTAGATGAGGAATCAACAAAGATTTTCTTGCTTTC
genomic: GGATAGCAAACAAGTTGCTCGACTCCAAATCAAATAATCCAAATTCAAAGgtccgtctct ... ctcttgacagGGAGATGCTATCTGAGCTAGATGAGGAATCAACAAAGATTTTCTTGCTTTC
EST: gi|15851150|gb|BI799426.1|BI799426
EST:     GGATAGCAAACAAGTTGCTCGACTCCAAATCAAATAATCCAAATTCAAAG                         GGAGATGCTATCTGAGCTAGATGAGGAATCAACAAAGATTTTCTTGCTTTC
genomic: GGATAGCAAACAAGTTGCTCGACTCCAAATCAAATAATCCAAATTCAAAGgtccgtctct ... ctcttgacagGGAGATGCTATCTGAGCTAGATGAGGAATCAACAAAGATTTTCTTGCTTTC
EST: gi|86415314|gb|CI069717.1|CI069717
EST:     GGATAGCAAACAAGTTGCTCGACTCCAAATCAAATAATCCAAATTCAAAG                         GGAGATGCTATCTGAGCTAGATGAGGAATCAACAAAGATTTTCTTGCTTTC
genomic: GGATAGCAAACAAGTTGCTCGACTCCAAATCAAATAATCCAAATTCAAAGgtccgtctct ... ctcttgacagGGAGATGCTATCTGAGCTAGATGAGGAATCAACAAAGATTTTCTTGCTTTC
EST: gi|88274771|gb|CI395177.1|CI395177
EST:     GGATAGCAAACAAGTTGCTCGACTCCAAATCAAATAATCCAAATTCAAAG                         GGAGATGCTATCTGAGCTAGATGAGGAATCAACAAAGATTTTCTTGCTTTC
genomic: GGATAGCAAACAAGTTGCTCGACTCCAAATCAAATAATCCAAATTCAAAGgtccgtctct ... ctcttgacagGGAGATGCTATCTGAGCTAGATGAGGAATCAACAAAGATTTTCTTGCTTTC
EST: gi|88480715|gb|CI417986.1|CI417986
EST:     GGATAGCAAACAAGTTGCTCGACTCCAAATCAAATAATCCAAATTCAAAG                         GGAGATGCTATCTGAGCTAGATGAGGAATCAACAAAGATTTTCTTGCTTTC
genomic: GGATAGCAAACAAGTTGCTCGACTCCAAATCAAATAATCCAAATTCAAAGgtccgtctct ... ctcttgacagGGAGATGCTATCTGAGCTAGATGAGGAATCAACAAAGATTTTCTTGCTTTC
EST: gi|86536514|gb|CI176720.1|CI176720
EST:     GGATAGCAAACAAGTTGCTCGACTCCAAATCAAATAATCCAAATTCAAAG                         GGAGATGCTATCTGAGCTAGATGAGGAATCAACAAAGATTTTCTTGCTTTC
genomic: GGATAGCAAACAAGTTGCTCGACTCCAAATCAAATAATCCAAATTCAAAGgtccgtctct ... ctcttgacagGGAGATGCTATCTGAGCTAGATGAGGAATCAACAAAGATTTTCTTGCTTTC
EST: gi|88388594|gb|CI683376.1|CI683376
EST:     GGATAGCAAACAAGTTGCTCGACTCCAAATCAAATAATCCAAATTCAAAG                         GGAGATGCTATCTGAGCTAGATGAGGAATCAACAAAGATTTTCTTGCTTTC
genomic: GGATAGCAAACAAGTTGCTCGACTCCAAATCAAATAATCCAAATTCAAAGgtccgtctct ... ctcttgacagGGAGATGCTATCTGAGCTAGATGAGGAATCAACAAAGATTTTCTTGCTTTC
EST: gi|86539861|gb|CI180067.1|CI180067
EST:     GGATAGCAAACAAGTTGCTCGACTCCAAATCAAATAATCCAAATTCAAAG                         GGAGATGCTATCTGAGCTAGATGAGGAATCAACAAAGATTTTCTTGCTTTC
genomic: GGATAGCAAACAAGTTGCTCGACTCCAAATCAAATAATCCAAATTCAAAGgtccgtctct ... ctcttgacagGGAGATGCTATCTGAGCTAGATGAGGAATCAACAAAGATTTTCTTGCTTTC
EST: gi|29633862|gb|CB638871.1|CB638871
EST:     GGATAGCAAACAAGTTGCTCGACTCCAAATCAAATAATCCAAATTCAAAG                         GGAGATGCTATTTGAGCTAGATGAGGAATCAACAAAGATTTTCTTGCTTTC
genomic: GGATAGCAAACAAGTTGCTCGACTCCAAATCAAATAATCCAAATTCAAAGgtccgtctct ... ctcttgacagGGAGATGCTATCTGAGCTAGATGAGGAATCAACAAAGATTTTCTTGCTTTC
EST: gi|89173694|gb|CI041587.1|CI041587
EST:     GGATAGCAAACAAGTTGCTCGACTCCAAATCAAATAATCCAAATTCAAAG                         GGAGATGCTATCTGAGCTAGATGAGGAATCAACAAAGATTTTCTTGCTTTC
genomic: GGATAGCAAACAAGTTGCTCGACTCCAAATCAAATAATCCAAATTCAAAGgtccgtctct ... ctcttgacagGGAGATGCTATCTGAGCTAGATGAGGAATCAACAAAGATTTTCTTGCTTTC
EST: gi|86866602|gb|CI343487.1|CI343487
EST:     GGATAGCAAACAAGTTGCTCGACTCCAAATCAAATAATCCAAATTCAAAG                         GGAGATGCTATCTGAGCTAGATGAGGAATCAACAAAGATTTTCTTGCTTTC
genomic: GGATAGCAAACAAGTTGCTCGACTCCAAATCAAATAATCCAAATTCAAAGgtccgtctct ... ctcttgacagGGAGATGCTATCTGAGCTAGATGAGGAATCAACAAAGATTTTCTTGCTTTC
EST: gi|88846800|gb|CI373568.1|CI373568
EST:     GGATAGCAAACAAGTTGCTCGACTCCAAATCAAATAATCCAAATTCAAAG                         GGAGATGCTATCTGAGCTAGATGAGGAATCAACAAAGATTTTCTTGCTTTC
genomic: GGATAGCAAACAAGTTGCTCGACTCCAAATCAAATAATCCAAATTCAAAGgtccgtctct ... ctcttgacagGGAGATGCTATCTGAGCTAGATGAGGAATCAACAAAGATTTTCTTGCTTTC
EST: gi|88850119|gb|CI091414.1|CI091414
EST:     GGATAGCAAACAAGTTGCTCGACTCCAAATCAAATAATCCAAATTCAAAG                         GGAGATGCTATCTGAGCTAGATGAGGAATCAACAAAGATTTTCTTGCTTTC
genomic: GGATAGCAAACAAGTTGCTCGACTCCAAATCAAATAATCCAAATTCAAAGgtccgtctct ... ctcttgacagGGAGATGCTATCTGAGCTAGATGAGGAATCAACAAAGATTTTCTTGCTTTC

RNA-Seq data


 ATGC   Supported by RNA-Seq exonic block that spans over the splice site

 atgs   Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.


Found data for 1 RNA-Seqlibrary.


Block sizes: 73 (upstream exon), 65 (downstream exon)
Score: 48

AAAGCATTGCAGCCTTACATGGGTGGAATCGATTTCCTTCCTTTCAAGCTGGATAGCAAACAAGTTGCTCGACTCCAAATCAAATAATCCAAATTCAAAGgtccgtctct ... ctcttgacagGGAGATGCTATCTGAGCTAGATGAGGAATCAACAAAGATTTTCTTGCTTTCAGACACTACTGGATGTTATTCATACTTCTAAAAAATGCGTTTGTTCAGA




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