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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTTCAGCTTCCAGTAGGTTATCATGGTCGTGCATCCTCTGTGATTGTATCTGGAACAGACATCATTCGACCCAAgtacgcatcccatagattcggatagttatcaaattcctgtcagattacgagatagttttattactattgtttgaatgattgaatatattagtgttattgg...

Basic information

species Oryza sativa
transcript LOC_Os02g10310.1
intron # 5
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|29664839|gb|CB661114.1|CB661114
EST:     GGTCGTGCATCCTCTGTGATTGTATCTGGAACAGACATCATTCGACCCAA                         AGGGCAAGGCCATCCAACAGGAGATTCTCGACCTTATTTTGGTCCTTCTAA
genomic: GGTCGTGCATCCTCTGTGATTGTATCTGGAACAGACATCATTCGACCCAAgtacgcatcc ... tgccttttagAGGGCAAGGCCATCCAACAGGAGATTCTCGACCTTATTTTGGTCCTTCTAA
EST: gi|29636596|gb|CB641605.1|CB641605
EST:     GGTCGTGCATCCTCTGTGATTGTATCTGGAACAGACATCATTCGACCCAA                         AGGGCAAGGCCATCCAACAGGAGATTCTCGACCTTATTTTGGTCCTTCTAA
genomic: GGTCGTGCATCCTCTGTGATTGTATCTGGAACAGACATCATTCGACCCAAgtacgcatcc ... tgccttttagAGGGCAAGGCCATCCAACAGGAGATTCTCGACCTTATTTTGGTCCTTCTAA
EST: gi|29672586|gb|CB668861.1|CB668861
EST:     GGTCGTGCATCCTCTGTGATTGTATCTGGAACAGACATCATTCGACCCAA                         AGGGCAAGGCCATCCAACAGGAGATTCTCGACCTTATTTTGGTCCTTCTAA
genomic: GGTCGTGCATCCTCTGTGATTGTATCTGGAACAGACATCATTCGACCCAAgtacgcatcc ... tgccttttagAGGGCAAGGCCATCCAACAGGAGATTCTCGACCTTATTTTGGTCCTTCTAA
EST: gi|29637361|gb|CB642370.1|CB642370
EST:     GGTCGTGCATCCTCTGTGATTGTATCTGGAACAGACATCATTCGACCCAA                         AGGGCAAGGCCATCCAACAGGAGATTCTCGACCTTATTTTGGTCCTTCTAA
genomic: GGTCGTGCATCCTCTGTGATTGTATCTGGAACAGACATCATTCGACCCAAgtacgcatcc ... tgccttttagAGGGCAAGGCCATCCAACAGGAGATTCTCGACCTTATTTTGGTCCTTCTAA
EST: gi|29672143|gb|CB668418.1|CB668418
EST:     GGTCGTGCATCCTCTGTGATTGTATCTGGAACAGACATCATTCGACCCAA                         AGGGCAAGGCCATCCAACAGGAGATTCTCGACCTTATTTTGGTCCTTCTAA
genomic: GGTCGTGCATCCTCTGTGATTGTATCTGGAACAGACATCATTCGACCCAAgtacgcatcc ... tgccttttagAGGGCAAGGCCATCCAACAGGAGATTCTCGACCTTATTTTGGTCCTTCTAA
EST: gi|29671042|gb|CB667317.1|CB667317
EST:     GGTCGTGCATCCTCTGTGATTGTATCTGGAACAGACATCATTCGACCCAA                         AGGGCAAGGCCATCCAACAGGAGATTCTCGACCTTATTTTGGTCCTTCTAA
genomic: GGTCGTGCATCCTCTGTGATTGTATCTGGAACAGACATCATTCGACCCAAgtacgcatcc ... tgccttttagAGGGCAAGGCCATCCAACAGGAGATTCTCGACCTTATTTTGGTCCTTCTAA
EST: gi|29636551|gb|CB641560.1|CB641560
EST:     GGTCGTGCATCCTCTGTGATTGTATCTGGAACAGACATCATTCGACCCAA                         AGGGCAAGGCCATCCAACAGGAGATTCTCGACCTTATTTTGGTCCTTCTAA
genomic: GGTCGTGCATCCTCTGTGATTGTATCTGGAACAGACATCATTCGACCCAAgtacgcatcc ... tgccttttagAGGGCAAGGCCATCCAACAGGAGATTCTCGACCTTATTTTGGTCCTTCTAA
EST: gi|29643533|gb|CB648540.1|CB648540
EST:     GGTCGTGCATCCTCTGTGATTGTATCTGGAACAGACATCATTCGACCCAA                         AGGGCAAGGCCATCCAACAGGAGATTCTCGACCTTATTTTGGTCCTTCTAA
genomic: GGTCGTGCATCCTCTGTGATTGTATCTGGAACAGACATCATTCGACCCAAgtacgcatcc ... tgccttttagAGGGCAAGGCCATCCAACAGGAGATTCTCGACCTTATTTTGGTCCTTCTAA
EST: gi|88324389|gb|CI566202.1|CI566202
EST:     GGTCGTGCATCCTCTGTGATTGTATCTGGAACAGACATCATTCGACCCAA                         AGGGCAAGGCCATCCAACAGGAGATTCTCGACCTTATTTTGGTCCTTCTTC
genomic: GGTCGTGCATCCTCTGTGATTGTATCTGGAACAGACATCATTCGACCCAAgtacgcatcc ... tgccttttagAGGGCAAGGCCATCCAACAGGAGATTCTCGACCTTATTTTGGTCCTTCTAA
EST: gi|4969133|gb|AU066037.1|AU066037
EST:     GGTCGTGCATCCTCTGTGATTGTATCTGGAACAGACATCATTCGACCCAA                         AGGGCAAGGCCATCCAACAGGAGATTCTCGACCTTATTTTGGTCCTTCTAA
genomic: GGTCGTGCATCCTCTGTGATTGTATCTGGAACAGACATCATTCGACCCAAgtacgcatcc ... tgccttttagAGGGCAAGGCCATCCAACAGGAGATTCTCGACCTTATTTTGGTCCTTCTAA
EST: gi|27548667|gb|CA766758.2|CA766758
EST:     GGTCGTGCATCCTCTGTGATTGTATCTGGAACAGACATCATTCGACCCAA                         AGGGCAAGGCCATCCAACAGGAGATTCTCGACCTTATTTTGGTCCTTCTAA
genomic: GGTCGTGCATCCTCTGTGATTGTATCTGGAACAGACATCATTCGACCCAAgtacgcatcc ... tgccttttagAGGGCAAGGCCATCCAACAGGAGATTCTCGACCTTATTTTGGTCCTTCTAA

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: 63 (upstream exon), 71 (downstream exon)
Score: 68

GTTTCAGCTTCCAGTAGGTTATCATGGTCGTGCATCCTCTGTGATTGTATCTGGAACAGACATCATTCGACCCAAgtacgcatcc ... tgccttttagAGGGCAAGGCCATCCAACAGGAGATTCTCGACCTTATTTTGGTCCTTCTAAGAAGCTTGATTTTGAACTTGAGATG




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