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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CATTCTCACGGGCCTCCTTTCATTCATGgtaagctcttagttttgcatcagctcagaattagcaagaaagattctcatcctgttttaattgctaacccatgtacacaagatgttattcatgcctatta...

Basic information

species Oryza sativa
transcript LOC_Os06g09330.1
intron # 7
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|87015788|gb|CI279540.1|CI279540
EST:     CATTCTCACGGGCCTCCTTTCATTCATG                         ATGGATGATGCTCTGACAACTGGAAGCATCAGGAGTACAGAGGGGGAAAAG
genomic: CATTCTCACGGGCCTCCTTTCATTCATGgtaagctctt ... gtgcttgcagATGGATGATGCTCTGACAACTGGAAGCATCAGGAGTACAGAGGGGGAAAAG
EST: gi|87010686|gb|CI312378.1|CI312378
EST:     CATTCTCACGGGCCTCCTTTCATTCATG                         ATGGATGATGCTCTGACAACTGGAAGCATCAGGAGTACAGAGGGGGAAAAG
genomic: CATTCTCACGGGCCTCCTTTCATTCATGgtaagctctt ... gtgcttgcagATGGATGATGCTCTGACAACTGGAAGCATCAGGAGTACAGAGGGGGAAAAG
EST: gi|86599367|gb|CI251325.1|CI251325
EST:     CATTCTCACGGGCCTCCTTTCATTCATG                         ATGGATGATGCTCTGACAACTGGAAGCATCAGGAGTACAGAGGGGGAAAAG
genomic: CATTCTCACGGGCCTCCTTTCATTCATGgtaagctctt ... gtgcttgcagATGGATGATGCTCTGACAACTGGAAGCATCAGGAGTACAGAGGGGGAAAAG
EST: gi|86514651|gb|CI157284.1|CI157284
EST:     CATTCTCACGGGCCTCCTTTCATTCATG                         ATGGATGATGCTCTGACAACTGGAAGCATCAGGAGTACAGAGGGGGAAAAG
genomic: CATTCTCACGGGCCTCCTTTCATTCATGgtaagctctt ... gtgcttgcagATGGATGATGCTCTGACAACTGGAAGCATCAGGAGTACAGAGGGGGAAAAG
EST: gi|86855623|gb|CI268950.1|CI268950
EST:     CATTCTCACGGGCCTCCTTTCATTCATG                         ATGGATGATGCTCTGACAACTGGAAGCATCAGGAGTACAGAGGGGGAAAAG
genomic: CATTCTCACGGGCCTCCTTTCATTCATGgtaagctctt ... gtgcttgcagATGGATGATGCTCTGACAACTGGAAGCATCAGGAGTACAGAGGGGGAAAAG
EST: gi|87035496|gb|CI190118.1|CI190118
EST:     CATTCTCACGGGCCTCCTTTCATTCATG                         ATGGATGATGCTCTGACAACTGGAAGCATCAGGAGTACAGAGGGGGAAAAG
genomic: CATTCTCACGGGCCTCCTTTCATTCATGgtaagctctt ... gtgcttgcagATGGATGATGCTCTGACAACTGGAAGCATCAGGAGTACAGAGGGGGAAAAG
EST: gi|88995570|gb|CI022893.1|CI022893
EST:     CTCCTTTCATTCATG                         ATGGATGATGCTCTGACAACTGGAAGCATCAGGAGTACAGAGGGGGAAAAG
genomic: CTCCTTTCATTCATGgtaagctctt ... gtgcttgcagATGGATGATGCTCTGACAACTGGAAGCATCAGGAGTACAGAGGGGGAAAAG
EST: gi|88206366|gb|CI206215.1|CI206215
EST:     CATTCTCACGGGCCTCCTTTCATTCATG                         ATGGATGATGCTCTGACAACTGGAAGCATCAGGAGTACAGAGGGGGAAAAG
genomic: CATTCTCACGGGCCTCCTTTCATTCATGgtaagctctt ... gtgcttgcagATGGATGATGCTCTGACAACTGGAAGCATCAGGAGTACAGAGGGGGAAAAG
EST: gi|86495662|gb|CI138295.1|CI138295
EST:     CATTCTCACGGGCCTCCTTTCATTCATG                         ATGGATGATGCTCTGACAACTGGAAGCATCAGGAGTACAGAGGGGGAAAAG
genomic: CATTCTCACGGGCCTCCTTTCATTCATGgtaagctctt ... gtgcttgcagATGGATGATGCTCTGACAACTGGAAGCATCAGGAGTACAGAGGGGGAAAAG
EST: gi|8956608|gb|BE230283.1|BE230283
EST:     CATTCTCACGGGCCTCCTTTCATTCATG                         ATGGATGATGCTCTGACAACTGGAAGCATCAGGAGTACAGAGGGGGAAAAG
genomic: CATTCTCACGGGCCTCCTTTCATTCATGgtaagctctt ... gtgcttgcagATGGATGATGCTCTGACAACTGGAAGCATCAGGAGTACAGAGGGGGAAAAG
EST: gi|87035120|gb|CI189743.1|CI189743
EST:     CATTCTCACGGGCCTCCTTTCATTCATG                         ATGGATGATGCTCTGACAACTGGAAGCATCAGGAGTACAGAGGGGGAAAAG
genomic: CATTCTCACGGGCCTCCTTTCATTCATGgtaagctctt ... gtgcttgcagATGGATGATGCTCTGACAACTGGAAGCATCAGGAGTACAGAGGGGGAAAAG
EST: gi|7134934|gb|AU082746.1|AU082746
EST:     CATTCTCACGGGCCTCCTTTCATTCATG                         ATGGATGATGCTCTGACAACTGGAAGCATCAGGAGTACAGAGGGGGAAAAG
genomic: CATTCTCACGGGCCTCCTTTCATTCATGgtaagctctt ... gtgcttgcagATGGATGATGCTCTGACAACTGGAAGCATCAGGAGTACAGAGGGGGAAAAG
EST: gi|89186387|gb|CI262219.1|CI262219
EST:     CATTCTCACGGGCCTCCTTTCATTCATG                         ATGGATGATGCTCTGACAACTGGAAGCATCAGGAGTACAGAGGGGGAAAAG
genomic: CATTCTCACGGGCCTCCTTTCATTCATGgtaagctctt ... gtgcttgcagATGGATGATGCTCTGACAACTGGAAGCATCAGGAGTACAGAGGGGGAAAAG
EST: gi|218487817|gb|FG955497.1|FG955497
EST:     CATTCTCACGGGCCTCCTTTCATTCATG                         ATGGATGATGCTCTGACAACTGGAAGCATCAGGAGTACAGAGGGGGAAAAG
genomic: CATTCTCACGGGCCTCCTTTCATTCATGgtaagctctt ... gtgcttgcagATGGATGATGCTCTGACAACTGGAAGCATCAGGAGTACAGAGGGGGAAAAG
EST: gi|218490255|gb|FG953556.1|FG953556
EST:     CATTCTCACGGGCCTCCTTTCATTCATG                         ATGGATGATGCTCTGACAACTGGAAGCATCAGGAGTACAGAGGGGGAAAAG
genomic: CATTCTCACGGGCCTCCTTTCATTCATGgtaagctctt ... gtgcttgcagATGGATGATGCTCTGACAACTGGAAGCATCAGGAGTACAGAGGGGGAAAAG
EST: gi|88223516|gb|CI223365.1|CI223365
EST:     GGGCCTCCTTTCATTCATG                         ATGGATGATGCTCTGACAACTGGAAGCATCAGGAGTACAGAGGGGGAAAAG
genomic: GGGCCTCCTTTCATTCATGgtaagctctt ... gtgcttgcagATGGATGATGCTCTGACAACTGGAAGCATCAGGAGTACAGAGGGGGAAAAG
EST: gi|218494998|gb|FG948724.1|FG948724
EST:     CATTCTCACGGGCCTCCTTTCATTCATG                         ATGGATGATGCTCTGACAACTGGAAGCATCAGGAGTACAGAGGGGGAAAAG
genomic: CATTCTCACGGGCCTCCTTTCATTCATGgtaagctctt ... gtgcttgcagATGGATGATGCTCTGACAACTGGAAGCATCAGGAGTACAGAGGGGGAAAAG

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: 39 (upstream exon), 55 (downstream exon)
Score: 46

CATTCTCACGGGCCTCCTTTCATTCATGgtaagctctt ... gtgcttgcagATGGATGATGCTCTGACAACTGGAAGCATCAGGAGTACAGAGGGGGAAAAGAGACGTTTAGCAAAGGCTTCCCTTGCCTACAACTGTGAGAG




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