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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtaattgtgccattgcatgtacattctagtctgtttcgctctatgatcctaatgtgctgatgctgtttatgtttctggcatgcgccgtgtatgaattcttgatgttctctccttgttggttcagGCTAAG

Basic information

species Oryza sativa
transcript LOC_Os01g01307.1
intron # 4
splice site 3'
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|88249475|gb|CI249324.1|CI249324
EST:     TTGCACTTGATGTTCTTGCTGAGAGGCCTCCAGAAAAGAAGTTTGAATGG                         GCTAAG
genomic: TTGCACTTGATGTTCTTGCTGAGAGGCCTCCAGAAAAGAAGTTTGAATGGgtaagtaatt ... gttggttcagGCTAAG
EST: gi|88908088|gb|CI090684.1|CI090684
EST:     TTGCACTTGATGTTCTTGCTGAGAGGCCTCCAGAAAAGAAGTTTGAATGG                         GCTAAG
genomic: TTGCACTTGATGTTCTTGCTGAGAGGCCTCCAGAAAAGAAGTTTGAATGGgtaagtaatt ... gttggttcagGCTAAG
EST: gi|88976399|gb|CI024616.1|CI024616
EST:     TTGCACTTGATGTTCTTGCTGAGAGGCCTCCAGAAAAGAAGTTTGAATGG                         GCTAAG
genomic: TTGCACTTGATGTTCTTGCTGAGAGGCCTCCAGAAAAGAAGTTTGAATGGgtaagtaatt ... gttggttcagGCTAAG
EST: gi|89185624|gb|CI264305.1|CI264305
EST:     GGCCTCCAGAAAAGAAGTTTGAATGG                         GCTAAG
genomic: GGCCTCCAGAAAAGAAGTTTGAATGGgtaagtaatt ... gttggttcagGCTAAG
EST: gi|86506952|gb|CI149585.1|CI149585
EST:     TTGCACTTGATGTTCTTGCTGAGAGGCCTCCAGAAAAGAAGTTTGAATGG                         ACTAAG
genomic: TTGCACTTGATGTTCTTGCTGAGAGGCCTCCAGAAAAGAAGTTTGAATGGgtaagtaatt ... gttggttcagGCTAAG
EST: gi|33693728|gb|CF321967.1|CF321967
EST:     TTGCACTTGATGTTCTTGCTGAGAGGCCTCCAGAAAAGAAGTTTGAATGG                         GCTAAG
genomic: TTGCACTTGATGTTCTTGCTGAGAGGCCTCCAGAAAAGAAGTTTGAATGGgtaagtaatt ... gttggttcagGCTAAG
EST: gi|55431192|gb|CV728603.1|CV728603
EST:     TTGCACTTGATGTTCTTGCTGAGAGGCCTCCAGAAAAGAAGTTTGAATGG                         GCTAAG
genomic: TTGCACTTGATGTTCTTGCTGAGAGGCCTCCAGAAAAGAAGTTTGAATGGgtaagtaatt ... gttggttcagGCTAAG
EST: gi|55441563|gb|CV734105.1|CV734105
EST:     TTGCACTTGATGTTCTTGCTGAGAGGCCTCCAGAAAAGAAGTTTGAATGG                         GCTAAG
genomic: TTGCACTTGATGTTCTTGCTGAGAGGCCTCCAGAAAAGAAGTTTGAATGGgtaagtaatt ... gttggttcagGCTAAG
EST: gi|5002911|gb|AU068020.1|AU068020
EST:     TTGCACTTGATGTTCTTGCTGAGAGGCCTCCAGAAAAGAAGTTTGAATGG                         GCTAAG
genomic: TTGCACTTGATGTTCTTGCTGAGAGGCCTCCAGAAAAGAAGTTTGAATGGgtaagtaatt ... gttggttcagGCTAAG
EST: gi|87010511|gb|CI283586.1|CI283586
EST:     TTGCACTTGATGTTCTTGCTGAGAGGCCTCCAGAAAAGAAGTTTGAATGG                         GCTAAG
genomic: TTGCACTTGATGTTCTTGCTGAGAGGCCTCCAGAAAAGAAGTTTGAATGGgtaagtaatt ... gttggttcagGCTAAG
EST: gi|86532074|gb|CI172280.1|CI172280
EST:     TTACACTTGATGTTCTTGCTGAGAGGCCTCCAGAAAAGAAGTTTGAATGG                         GCTAAG
genomic: TTGCACTTGATGTTCTTGCTGAGAGGCCTCCAGAAAAGAAGTTTGAATGGgtaagtaatt ... gttggttcagGCTAAG
EST: gi|15848576|gb|BI796852.1|BI796852
EST:     TTGCACTTGATGTTCTTGCTGAGA-GCCTCCAGAAAAGAAGTTTGAATGG                         GCTAAG
genomic: TTGCACTTGATGTTCTTGCTGAGAGGCCTCCAGAAAAGAAGTTTGAATGGgtaagtaatt ... gttggttcagGCTAAG
EST: gi|86530842|gb|CI171048.1|CI171048
EST:     TTGCACTTGATGTTCTTGCTGAGAGGCCTCCAGAAAAGAAGTTTGAATGG                         GCTAAG
genomic: TTGCACTTGATGTTCTTGCTGAGAGGCCTCCAGAAAAGAAGTTTGAATGGgtaagtaatt ... gttggttcagGCTAAG
EST: gi|88907999|gb|CI090595.1|CI090595
EST:     TTGCACTTGATGTTCTTGCTGAGAGGCCTCCAGAAAAGAAGTTTGAATGG                         GCTAAG
genomic: TTGCACTTGATGTTCTTGCTGAGAGGCCTCCAGAAAAGAAGTTTGAATGGgtaagtaatt ... gttggttcagGCTAAG
EST: gi|15852886|gb|BI805682.1|BI805682
EST:     TTGCACTTGATGTTCTTGCTGAGAGGCCTCCAGAAAAGAAGTTTGAATGG                         GCTAAG
genomic: TTGCACTTGATGTTCTTGCTGAGAGGCCTCCAGAAAAGAAGTTTGAATGGgtaagtaatt ... gttggttcagGCTAAG
EST: gi|86522288|gb|CI162494.1|CI162494
EST:     TCCAGAAAAGAAGTTTGAATGG                         GCTAAG
genomic: TCCAGAAAAGAAGTTTGAATGGgtaagtaatt ... gttggttcagGCTAAG
EST: gi|87032410|gb|CI264191.1|CI264191
EST:     TTGCACTTGATGTTCTTGCTGAGAGGCCTCCAGAAAAGAAGTTTGAATGG                         GCTAAG
genomic: TTGCACTTGATGTTCTTGCTGAGAGGCCTCCAGAAAAGAAGTTTGAATGGgtaagtaatt ... gttggttcagGCTAAG
EST: gi|55431326|gb|CV728677.1|CV728677
EST:     TTGCACTTGATGTTCTTGTTGAGAGGCCTCCAGAAAAGAAGTTTGAATGG                         GCTAAG
genomic: TTGCACTTGATGTTCTTGCTGAGAGGCCTCCAGAAAAGAAGTTTGAATGGgtaagtaatt ... gttggttcagGCTAAG
EST: gi|86415683|gb|CI029694.1|CI029694
EST:     TTGCACTTGATGTTCTTGCTGAGAGGCCTCCAGAAAAGAAGTTTGAATGG                         GCTAAG
genomic: TTGCACTTGATGTTCTTGCTGAGAGGCCTCCAGAAAAGAAGTTTGAATGGgtaagtaatt ... gttggttcagGCTAAG
EST: gi|25807463|gb|CA763424.1|CA763424
EST:     TTGCACTTGATGTTCTTGCTGAGAGGCCTCCAGAAAAGAAGTTTGAATGG                         GCTAAG
genomic: TTGCACTTGATGTTCTTGCTGAGAGGCCTCCAGAAAAGAAGTTTGAATGGgtaagtaatt ... gttggttcagGCTAAG
EST: gi|86416814|gb|CI030825.1|CI030825
EST:     TTGCACTTGATGTTCTTGCTGAGAGGCCTCCAGAAAAGAAGTTTGAATGG                         GCTAAG
genomic: TTGCACTTGATGTTCTTGCTGAGAGGCCTCCAGAAAAGAAGTTTGAATGGgtaagtaatt ... gttggttcagGCTAAG
EST: gi|88267065|gb|CI379000.1|CI379000
EST:     TTCCACTTAATGTTCTTGCTGAGAGGCCTCCAGAAAAGAATTTTTAATGG                         GCTAAG
genomic: TTGCACTTGATGTTCTTGCTGAGAGGCCTCCAGAAAAGAAGTTTGAATGGgtaagtaatt ... gttggttcagGCTAAG
EST: gi|88975507|gb|CI021589.1|CI021589
EST:     TTGCACTTGATGTTCTTGCTGAGAGGCCTCCAGAAAAGAAGTTTGAATGG                         GCTAAG
genomic: TTGCACTTGATGTTCTTGCTGAGAGGCCTCCAGAAAAGAAGTTTGAATGGgtaagtaatt ... gttggttcagGCTAAG
EST: gi|87027081|gb|CI261528.1|CI261528
EST:     TTGCACTTGATGTTCTTGCTGAGAGGCCTCCAGAAAAGAAGTTTGAATGG                         GCTGAG
genomic: TTGCACTTGATGTTCTTGCTGAGAGGCCTCCAGAAAAGAAGTTTGAATGGgtaagtaatt ... gttggttcagGCTAAG
EST: gi|55431655|gb|CV728843.1|CV728843
EST:     TTGCACTTGATGTTCTTGCTGAGAGGCCTCCAGAAAAGAAGTTTGAATGG                         GCTAAG
genomic: TTGCACTTGATGTTCTTGCTGAGAGGCCTCCAGAAAAGAAGTTTGAATGGgtaagtaatt ... gttggttcagGCTAAG
EST: gi|33816593|gb|CF334128.1|CF334128
EST:     TTGCACTTGATGTTCTTGCTGAGAGGCCTCCAGAAAAGAAGTTTGAATGG                         GCTAAG
genomic: TTGCACTTGATGTTCTTGCTGAGAGGCCTCCAGAAAAGAAGTTTGAATGGgtaagtaatt ... gttggttcagGCTAAG
EST: gi|33660042|gb|CF291009.1|CF291009
EST:     TTGCACTTGATGTTCTTGCTGAGAGGCCTCCAGAAAAGAAGTTTGAATGG                         GCTAAG
genomic: TTGCACTTGATGTTCTTGCTGAGAGGCCTCCAGAAAAGAAGTTTGAATGGgtaagtaatt ... gttggttcagGCTAAG
EST: gi|86530806|gb|CI171012.1|CI171012
EST:     GTTCTTGCTGAGAGGCCTCCAGAAAAGAAGTTTGAATGG                         GCTAAG
genomic: GTTCTTGCTGAGAGGCCTCCAGAAAAGAAGTTTGAATGGgtaagtaatt ... gttggttcagGCTAAG
EST: gi|88320313|gb|CI520857.1|CI520857
EST:     TCTTGCTGAGAGGCCTCCAGAAAAGAAGTTTGAATGG                         GCTAAG
genomic: TCTTGCTGAGAGGCCTCCAGAAAAGAAGTTTGAATGGgtaagtaatt ... gttggttcagGCTAAG
EST: gi|58594778|gb|CF993086.1|CF993086
EST:     TTGCACTTGATGTTCTTGCTGAGAGGCCTCCAGAAAAGAAGTTTGAATGG                         GCTAAG
genomic: TTGCACTTGATGTTCTTGCTGAGAGGCCTCCAGAAAAGAAGTTTGAATGGgtaagtaatt ... gttggttcagGCTAAG
EST: gi|88228632|gb|CI228112.1|CI228112
EST:     TTGCACTTGATGTTCTTGCTGAGAGGCCTCCAGAAAAGAAGTTTGAATGG                         GCTAAG
genomic: TTGCACTTGATGTTCTTGCTGAGAGGCCTCCAGAAAAGAAGTTTGAATGGgtaagtaatt ... gttggttcagGCTAAG
EST: gi|86415979|gb|CI029990.1|CI029990
EST:     TTGCACTTGATGTTCTTGCTGAGAGGCCTCCAGAAAAGAAGTTTGAATGG                         GCTAAG
genomic: TTGCACTTGATGTTCTTGCTGAGAGGCCTCCAGAAAAGAAGTTTGAATGGgtaagtaatt ... gttggttcagGCTAAG
EST: gi|88837885|gb|CI371463.1|CI371463
EST:     TTGCACTTGATGTTCTTGCTGAGA-GCCTCCAGAAAAGAAGTTTGAATGG                         GCTAAG
genomic: TTGCACTTGATGTTCTTGCTGAGAGGCCTCCAGAAAAGAAGTTTGAATGGgtaagtaatt ... gttggttcagGCTAAG
EST: gi|12405401|gb|AU167002.1|AU167002
EST:     TTGCACTTGATGTTCTTGCTGAGAGGCCTCCAGAAAAGAAGTTTGAATGG                         GCTAAG
genomic: TTGCACTTGATGTTCTTGCTGAGAGGCCTCCAGAAAAGAAGTTTGAATGGgtaagtaatt ... gttggttcagGCTAAG
EST: gi|427829|gb|D23969.1|D23969
EST:     TTGCACTTGATGTTCTTGCTGAGAGGCCTCCAGAAAAGAAGTTTGAATGG                         GCTAAG
genomic: TTGCACTTGATGTTCTTGCTGAGAGGCCTCCAGAAAAGAAGTTTGAATGGgtaagtaatt ... gttggttcagGCTAAG
EST: gi|5004937|gb|AU070175.1|AU070175
EST:     TTGCACTTGATGTTCTTGCTGAGAGGCCTCCAGAAAAGAAGTTTGAATGG                         GCTAAG
genomic: TTGCACTTGATGTTCTTGCTGAGAGGCCTCCAGAAAAGAAGTTTGAATGGgtaagtaatt ... gttggttcagGCTAAG
EST: gi|86839596|gb|CI339491.1|CI339491
EST:     TTGCACTTGATGTTCTTGCTGAGAGGCCTCCAGAAAAGAAGTTTGAATGG                         GCTAAG
genomic: TTGCACTTGATGTTCTTGCTGAGAGGCCTCCAGAAAAGAAGTTTGAATGGgtaagtaatt ... gttggttcagGCTAAG
EST: gi|86413465|gb|CI067870.1|CI067870
EST:     TTGCACTTGATGTTCTTGCTGAGAGGCCTCCAGAAAAGAAGTTTGAATGG                         GCTAAG
genomic: TTGCACTTGATGTTCTTGCTGAGAGGCCTCCAGAAAAGAAGTTTGAATGGgtaagtaatt ... gttggttcagGCTAAG
EST: gi|33809715|gb|CF330747.1|CF330747
EST:     CTTGCTGAGAGGCCTCCAGAAAAGAAGTTTGAATGG                         GCTAAG
genomic: CTTGCTGAGAGGCCTCCAGAAAAGAAGTTTGAATGGgtaagtaatt ... gttggttcagGCTAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtttctggcatgcgccgtgtatgaattcttgatgttctctccttgttggttcagGCTAAG
                           tcttgat  putative branch site (score: 4)
                                 tgttctctccttgtt  CT-rich tract
                    tatgaatt  TA-rich tract