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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgctaatataaatcaactcataagcttcttgttgcttttctttttctttgtagacattaaaatgccagtgcatatgctattttatgtgacttgagcaattctgttgattcacagCCAATGCTTCAAGAGCTTGGGAAGCAGAATCCGCAAATCTTGCGGTTGATTCAGGAAAATCAGGCTGAATTTCTCCGTCTGGTGAATGAATCTCCTGATA

Basic information

species Oryza sativa
transcript LOC_Os06g15360.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g15360.1 (Oryza sativa), 3'ss of exon 9
lower sequence: GRMZM2G035417_T01 (Zea mays), 3'ss of exon 9
gtgctaatataaatcaactcataagcttcttgttgcttttctttttctttgtagacattaaaatgccagtgcatatgctattttatgtgacttgagcaattctgttgattcacagCCAATGCTTCAAGAGCTTGGGAAGCAGAATCCGCAAATCTTGCGGTTGATTCAGGAAAATCAGGCTGAATTTCTCCGTCTGGTGAATGAATCTCCTGATA
              |   |  |  | |  |  ||  | || |||  | || || |  |||| | | || | ||   | | |  |   ||| |||    ||| ||||||||   ||||||||||||||||||| || || || || || |||||  |||||||||||||||||||||| ||||| ||||||||  |||||||||||||||||||  
-----------gtgcttttactgtgttattccttagtattttttgacattttatattttaata-gtcatttcactgggtttggtcaatga-ttgtatgatt-tgttgattggtagCCAATGCTTCAAGAGCTAGGTAAACAAAACCCACAAATTCTGCGGTTGATTCAGGAAAATCAAGCTGAGTTTCTCCGCTTGGTGAATGAATCTCCTGAGG
















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|88847927|gb|CI006113.1|CI006113
EST:     TTCCAAGCGCTGCTTGCATTGGTCCAGGCTAATCCCCAAATCTTGCAG                         CCAATGCTTCAAGAGCTTGGGAAGCAGAATCCGCAAATCTTGCGGTTGATT
genomic: TTCCAAGCGCTGCTTGCATTGGTCCAGGCTAATCCCCAAATCTTGCAGgtgctaatat ... tgattcacagCCAATGCTTCAAGAGCTTGGGAAGCAGAATCCGCAAATCTTGCGGTTGATT
EST: gi|29643187|gb|CB648194.1|CB648194
EST:     TTCCAAGCGCTGCTTGCATTGGTCCAGGCTAATCCCCAAATCTTGCAG                         CCAATGCTTCAAGAGCTTGGGAAGCAGAATCCGCAAATCTTGCGGTTGATT
genomic: TTCCAAGCGCTGCTTGCATTGGTCCAGGCTAATCCCCAAATCTTGCAGgtgctaatat ... tgattcacagCCAATGCTTCAAGAGCTTGGGAAGCAGAATCCGCAAATCTTGCGGTTGATT
EST: gi|29657665|gb|CB653940.1|CB653940
EST:     TTCCAAGCGCTGCTTGCATTGGTCCAGGCTAATCCCCAAATCTTGCAG                         CCAATGCTTCAAGAGCTTGGGAAGCAGAATCCGCAAATCTTGCGGTTGATT
genomic: TTCCAAGCGCTGCTTGCATTGGTCCAGGCTAATCCCCAAATCTTGCAGgtgctaatat ... tgattcacagCCAATGCTTCAAGAGCTTGGGAAGCAGAATCCGCAAATCTTGCGGTTGATT
EST: gi|29669285|gb|CB665560.1|CB665560
EST:     TTCCAAGCGCTGCTTGCATTGGTCCAGGCTAATCCCCAAATCTTGCAG                         CCAATGCTTCAAGAGCTTGGGAAGCAGAATCCGCAAATCTTGCGGTTGATT
genomic: TTCCAAGCGCTGCTTGCATTGGTCCAGGCTAATCCCCAAATCTTGCAGgtgctaatat ... tgattcacagCCAATGCTTCAAGAGCTTGGGAAGCAGAATCCGCAAATCTTGCGGTTGATT
EST: gi|29655833|gb|CB652108.1|CB652108
EST:     TTCCAAGCGCTGCTTGCATTGGTCCAGGCTAATCCCCAAATCTTGCAG                         CCAATGCTTCAAGAGCTTGGGAAGCAGAATCCGCAAATCTTGC
genomic: TTCCAAGCGCTGCTTGCATTGGTCCAGGCTAATCCCCAAATCTTGCAGgtgctaatat ... tgattcacagCCAATGCTTCAAGAGCTTGGGAAGCAGAATCCGCAAATCTTGC
EST: gi|29643233|gb|CB648240.1|CB648240
EST:     TTCCAAGCGCTGCTTGCATTGGTCCAGGCTAATCCCCAAATCTTGCAG                         CCAATGCTTCAAGAGCTTGGGAAGCAGAATCCGCAAATCTTGCGGTTGATT
genomic: TTCCAAGCGCTGCTTGCATTGGTCCAGGCTAATCCCCAAATCTTGCAGgtgctaatat ... tgattcacagCCAATGCTTCAAGAGCTTGGGAAGCAGAATCCGCAAATCTTGCGGTTGATT
EST: gi|300215820|gb|HO088446.1|HO088446
EST:     TTCCAAGCGCTGCTTGGCATTGGTCCAGGCTAATCCCCAAATCTTGCAG                         CCAATGCTTCAAGAGCTTGGGAAGCAGAATCCGCAAATCTTGCGGTTGATT
genomic: TTCCAAGCGCTGCTTG-CATTGGTCCAGGCTAATCCCCAAATCTTGCAGgtgctaatat ... tgattcacagCCAATGCTTCAAGAGCTTGGGAAGCAGAATCCGCAAATCTTGCGGTTGATT
EST: gi|33654536|gb|CF277150.1|CF277150
EST:     TTCCAAGCGCTGCTTGCATTGGTCCAGGCTAATCCCCAAATCTTGCAG                         CCAATGCTTCAAGAGCTTGGGAAGCAGAATCCGCAAATCTTGCGGTTGATT
genomic: TTCCAAGCGCTGCTTGCATTGGTCCAGGCTAATCCCCAAATCTTGCAGgtgctaatat ... tgattcacagCCAATGCTTCAAGAGCTTGGGAAGCAGAATCCGCAAATCTTGCGGTTGATT
EST: gi|29662304|gb|CB658579.1|CB658579
EST:     TTCCAAGCGCTGCTTGCATTGGTCCAGGCTAATCCCCAAATCTTGCAG                         CCAATGCTTCAAGAGCTTGGGAAGCAGAATCCGCAAATCTTGCGGTTGATT
genomic: TTCCAAGCGCTGCTTGCATTGGTCCAGGCTAATCCCCAAATCTTGCAGgtgctaatat ... tgattcacagCCAATGCTTCAAGAGCTTGGGAAGCAGAATCCGCAAATCTTGCGGTTGATT
EST: gi|29660321|gb|CB656596.1|CB656596
EST:     TTCCAAGCGCTGCTTGCATTGGTCCAGGCTAATCCCCAAATCTTGCAG                         CCAATGCTTCAAGAGCTTGGGAAGCAGAATCCGCAAATCTTGCGGTTGATT
genomic: TTCCAAGCGCTGCTTGCATTGGTCCAGGCTAATCCCCAAATCTTGCAGgtgctaatat ... tgattcacagCCAATGCTTCAAGAGCTTGGGAAGCAGAATCCGCAAATCTTGCGGTTGATT
EST: gi|87015278|gb|CI275468.1|CI275468
EST:     TTCCAAGCGCTGCTTGCATTGGTCCAGGCTAATCCCCAAATCTTGCAG                         CCAATGCTTCAAGAGCTTGGGAAGCAGAATCCGCAAATCTTGCGGTTGATT
genomic: TTCCAAGCGCTGCTTGCATTGGTCCAGGCTAATCCCCAAATCTTGCAGgtgctaatat ... tgattcacagCCAATGCTTCAAGAGCTTGGGAAGCAGAATCCGCAAATCTTGCGGTTGATT
EST: gi|86494540|gb|CI137173.1|CI137173
EST:     TTCCAAGCGCTGCTTGCATTGGTCCAGGCTAATCCCCAAATCTTGCAG                         CCAATGCTTCAAGAGCTTGGGAAGCAGAATCCGCAAATCTTGCGGTTGATT
genomic: TTCCAAGCGCTGCTTGCATTGGTCCAGGCTAATCCCCAAATCTTGCAGgtgctaatat ... tgattcacagCCAATGCTTCAAGAGCTTGGGAAGCAGAATCCGCAAATCTTGCGGTTGATT
EST: gi|29673855|gb|CB670130.1|CB670130
EST:     TTCCAAGCGCTGCTTGCATTGGTCCAGGCTAATCCCCAAATCTTGCAG                         CCAATGCTTCAAGAGCTTGGGAAGCAGAATCCGCAAATCTTGCGGTTGATT
genomic: TTCCAAGCGCTGCTTGCATTGGTCCAGGCTAATCCCCAAATCTTGCAGgtgctaatat ... tgattcacagCCAATGCTTCAAGAGCTTGGGAAGCAGAATCCGCAAATCTTGCGGTTGATT
EST: gi|29670072|gb|CB666347.1|CB666347
EST:     TTCCAAGCGCTGCTTGCATTGGTCCAGGCTAATCCCCAAATCTTGCAG                         CCAATGCTTCAAGAGCTTGGGAAGCAGAATCCGCAAATCTTGCGGTTGATT
genomic: TTCCAAGCGCTGCTTGCATTGGTCCAGGCTAATCCCCAAATCTTGCAGgtgctaatat ... tgattcacagCCAATGCTTCAAGAGCTTGGGAAGCAGAATCCGCAAATCTTGCGGTTGATT
EST: gi|88830186|gb|CI076442.1|CI076442
EST:     TTCCAAGCGCTGCTTGCATTGGTCCAGGCTAATCCCCAAATCTTGCAG                         CCAATGCTTCAAGAGCTTGGGAAGCAGAATCCGCAAATCTTGCGGTTGATT
genomic: TTCCAAGCGCTGCTTGCATTGGTCCAGGCTAATCCCCAAATCTTGCAGgtgctaatat ... tgattcacagCCAATGCTTCAAGAGCTTGGGAAGCAGAATCCGCAAATCTTGCGGTTGATT
EST: gi|29630613|gb|CB635622.1|CB635622
EST:     TTCCAAGCGCTGCTTGCATTGGTCCAGGCTAATCCCCAAATCTTGCAG                         CCAATGCTTCAAGAGCTTGGGAAGCAGAATCCGCAAATCTTGCGGTTGATT
genomic: TTCCAAGCGCTGCTTGCATTGGTCCAGGCTAATCCCCAAATCTTGCAGgtgctaatat ... tgattcacagCCAATGCTTCAAGAGCTTGGGAAGCAGAATCCGCAAATCTTGCGGTTGATT
EST: gi|2431315|gb|C73735.1|C73735
EST:     TTCCAAGCGCTGCTTGCATTGGTCCAGGCTAATCCCCAAATCTTGCAG                         CCAATGCTTCAAGAGCTTGGGAAGCAGAATCCGCAAATCTTGCGGTTGATT
genomic: TTCCAAGCGCTGCTTGCATTGGTCCAGGCTAATCCCCAAATCTTGCAGgtgctaatat ... tgattcacagCCAATGCTTCAAGAGCTTGGGAAGCAGAATCCGCAAATCTTGCGGTTGATT
EST: gi|300215841|gb|HO088467.1|HO088467
EST:     TTCCAAGCGCTGCTTGGCATTGGTCCAGGCTAATCCCCAAATCTTGCAG                         CCAATGCTTCAAGAGCTTGGGAAGCAGAATCCGCAAATCTTGCGGTTGATT
genomic: TTCCAAGCGCTGCTTG-CATTGGTCCAGGCTAATCCCCAAATCTTGCAGgtgctaatat ... tgattcacagCCAATGCTTCAAGAGCTTGGGAAGCAGAATCCGCAAATCTTGCGGTTGATT
EST: gi|14980837|gb|BI305515.1|BI305515
EST:     TTCCAAGCGCTGCTTGCATTGGTCCAGGCTAATCCCCAAATCTTGCAG                         CCAATGCTTCAAGAGCTTGGGAAGCAGAATCCGCAAATCTTGCGGTTGATT
genomic: TTCCAAGCGCTGCTTGCATTGGTCCAGGCTAATCCCCAAATCTTGCAGgtgctaatat ... tgattcacagCCAATGCTTCAAGAGCTTGGGAAGCAGAATCCGCAAATCTTGCGGTTGATT
EST: gi|23514955|gb|BU673867.1|BU673867
EST:     TTCCAAGCGCTGCTTGCATTGGTCCAGGCTAATCCCCAAATCTTGCAG                         CCAATGCTTCAAGAGCTTGGGAAGCAGAATCCGCAAATCTTGCGGTTGATT
genomic: TTCCAAGCGCTGCTTGCATTGGTCCAGGCTAATCCCCAAATCTTGCAGgtgctaatat ... tgattcacagCCAATGCTTCAAGAGCTTGGGAAGCAGAATCCGCAAATCTTGCGGTTGATT
EST: gi|8859709|gb|AU097027.1|AU097027
EST:     TTCCAAGCGCTGCTTGCATTGGTCCAGGCTAATCCCCAAATCTTGCAG                         CCAATGCTTCAAGAGCTTGGGAAGCAGAATCCGCAAATCTTGCGGTTGATT
genomic: TTCCAAGCGCTGCTTGCATTGGTCCAGGCTAATCCCCAAATCTTGCAGgtgctaatat ... tgattcacagCCAATGCTTCAAGAGCTTGGGAAGCAGAATCCGCAAATCTTGCGGTTGATT
EST: gi|218488797|gb|FG951622.1|FG951622
EST:     TTCCAAGCGCTGCTTGCATTGGTCCAGGCTAATCCCCAAATCTTGCAG                         CCAATGCTTCAAGAGCTTGGGAAGCAGAATCCGCAAATCTTGCGGTTGATT
genomic: TTCCAAGCGCTGCTTGCATTGGTCCAGGCTAATCCCCAAATCTTGCAGgtgctaatat ... tgattcacagCCAATGCTTCAAGAGCTTGGGAAGCAGAATCCGCAAATCTTGCGGTTGATT
EST: gi|29631165|gb|CB636174.1|CB636174
EST:     TTCCAAGCGCTGCTTGCATTGGTCCAGGCTAATCCCCAAATCTTGCAG                         CCAATGCTTCAAGAGCTTGGGAAGCAGAATCCGCAAATCTTGCGGTTGATT
genomic: TTCCAAGCGCTGCTTGCATTGGTCCAGGCTAATCCCCAAATCTTGCAGgtgctaatat ... tgattcacagCCAATGCTTCAAGAGCTTGGGAAGCAGAATCCGCAAATCTTGCGGTTGATT
EST: gi|87036144|gb|CI189591.1|CI189591
EST:     TTCCAAGCGCTGCTTGCATTGGTCCAGGCTAATCCCCAAATCTTGCAG                         CCAATGCTTCAAGAGCTTGGGAAGCAGAATCCGCAAATCTTGCGGTTGATT
genomic: TTCCAAGCGCTGCTTGCATTGGTCCAGGCTAATCCCCAAATCTTGCAGgtgctaatat ... tgattcacagCCAATGCTTCAAGAGCTTGGGAAGCAGAATCCGCAAATCTTGCGGTTGATT
EST: gi|32947880|gb|BP184452.1|BP184452
EST:     TTCCAAGCGCTGCTTGCATTGGTCCAGGCTAATCCCCAAATCTTGCAG                         CCAATGCTTCAAGAGCTTGGGAAGCAGAATCCGCAAATCTTGCGGTTGATT
genomic: TTCCAAGCGCTGCTTGCATTGGTCCAGGCTAATCCCCAAATCTTGCAGgtgctaatat ... tgattcacagCCAATGCTTCAAGAGCTTGGGAAGCAGAATCCGCAAATCTTGCGGTTGATT
EST: gi|8527786|gb|AU092601.1|AU092601
EST:     TTCCAAGCGCTGCTTGCATTGGTCCAGGCTAATCCCCAAATCTTGCAG                         CCAATGCTTCAAGAGCTTGGGAAGCAGAATCCGCAAATCTTGCGGTTGATT
genomic: TTCCAAGCGCTGCTTGCATTGGTCCAGGCTAATCCCCAAATCTTGCAGgtgctaatat ... tgattcacagCCAATGCTTCAAGAGCTTGGGAAGCAGAATCCGCAAATCTTGCGGTTGATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaatgccagtgcatatgctattttatgtgacttgagcaattctgttgattcacagCCAATGCTTCAAGAGCTTGGGAAGCAGAATCCGCAAATCTTGCGGTTGATTCAGGAAAATCAGGCTGAATTTCTCCGTCTGGTGAATGAATCTCCTGATA
                                          tgttgat  putative branch site (score: 4)
                                       ttctgtt  CT-rich tract
            atatgctattttat  TA-rich tract