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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atgtcaaaaggagaatgtgcatcttgtgaattagagaaactgtggaattcaaccttcaaactgaaatcaaccaataacgtctcatcattcccttttccagGATGCAATGCGGAAGGATACCCTAGAACGCGCAAGAGAGCCAGGGTTCGACCTCAAAGGATACCTGATGAATGCCTACATCCACCCGGTGTTCAAAGGCG

Basic information

species Oryza sativa
transcript LOC_Os01g35050.4
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g35050.4 (Oryza sativa), 3'ss of exon 11
lower sequence: GRMZM2G021194_T01 (Zea mays), 3'ss of exon 11
------------------------atgtcaaaaggagaatg-------tgcatcttgtgaattagagaaactgtggaattcaaccttcaaactgaaatcaaccaataacgtctcatcattcccttttccagGATGCAATGCGGAAGGATACCCTAGAACGCGCAAGAGAGCCAGGGTTCGACCTCAAAGGATACCTGATGAATGCCTACATCCACCCGGTGTTCAAAGGCG
                        | || || |   |  ||       | ||  | |   |||| | |   |||  ||  |   |     |  ||     || |  |||   |   |||| | ||  |||||| || |||  |||||||||||| ||||| || ||||||||||| || ||||||||||||||||| |||||||||||||||||||||||||||||||| |
gtatgtttccttctaaaatctgggaggtgaataaatgtgtgacctaaatacagttagatcattaaaaaccatgtttaaaacggtcgcaccatggagcatgactaccaacacatttccatttcgtta-ccagGAGGCGATGAAGAAGGATACCCTGGAACGTGCCAGAGAGCCAGGATTTGACCTCAAAGGATACCTAATGAATGCCTACATCCACCCGGTGTTCAAAGGTG

upper sequence: LOC_Os01g35050.4 (Oryza sativa), 3'ss of exon 11
lower sequence: GRMZM2G064189_T01 (Zea mays), 3'ss of exon 4
-----------------------------------------------atgtcaaaaggagaatgtgcatcttgtgaattagagaaactgtggaattcaaccttcaaactgaaatcaaccaataacgtctcatcattcccttttccagGATGCAATGCGGAAGGATACCCTAGAACGCGCAAGAGAGCCAGGGTTCGACCTCAAAGGATACCTGATGAATGCCTACATCCACCCGGTGTTCAAAGGCG
                                               ||      ||   | |    ||    | ||||  |   | |||  ||  |         |  ||     || |  |||   |   |||| | ||  |||||| || |||  |||||||||||| ||||| || ||||||||||| || ||||||||||||||||| |||||||||||||||||||||||||||||||| |
gtatgtttccttcaaaactctgggaggtgaataaatgtgtgacctaaatacagttagatcattaaaaatggcataaattcaaacca-tgtttaaaacggttgcaccatggagcatgactaccaacacatttccatttcgtta-ccagGAGGCGATGAAGAAGGATACCCTGGAACGTGCCAGAGAGCCAGGATTTGACCTCAAAGGATACCTAATGAATGCCTACATCCACCCGGTGTTCAAAGGTG
















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|86833482|gb|CI336271.1|CI336271
EST:     AATACTGCAAGAATCGCTATGAGCCTGCTTTTGTGGAATATCCATTACAG                         GATGCAATGCGGAAGGATACCCTAGAACGCGCAAGAGAGCCAGGGTTCGAC
genomic: AATACTGCAAGAATCGCTATGAGCCTGCTTTTGTGGAATATCCATTACAGgtaatgctca ... ccttttccagGATGCAATGCGGAAGGATACCCTAGAACGCGCAAGAGAGCCAGGGTTCGAC
EST: gi|29623286|gb|CB628297.1|CB628297
EST:     AATACTGCAAGAATCGCTATGAGCCTGCTTTTGTGGAATATCCATTACAG                         GATGCAATGCGGAAGGATACCCTAGAACGCGCAAGAGAGCCAGGGTTCGAC
genomic: AATACTGCAAGAATCGCTATGAGCCTGCTTTTGTGGAATATCCATTACAGgtaatgctca ... ccttttccagGATGCAATGCGGAAGGATACCCTAGAACGCGCAAGAGAGCCAGGGTTCGAC
EST: gi|88243126|gb|CI244248.1|CI244248
EST:     AATACTGCAAGAATCGCTATGAGCCTGCTTTTGTGGAATATCCATTACAG                         GATGCAATGCGGAAGGATACCCTAGAACGCGCAAGAGAGCCAGGGTTCGAC
genomic: AATACTGCAAGAATCGCTATGAGCCTGCTTTTGTGGAATATCCATTACAGgtaatgctca ... ccttttccagGATGCAATGCGGAAGGATACCCTAGAACGCGCAAGAGAGCCAGGGTTCGAC
EST: gi|88543277|gb|CI473272.1|CI473272
EST:     ATACTGCAAGAATCGCTATGAGCCTGCTTTTTTGGAATATCCATTACAG                         GATGCAATGCGGAAGGATACCCTAGAACGCGCAAGAGAGCCAGGGTTCGAC
genomic: ATACTGCAAGAATCGCTATGAGCCTGCTTTTGTGGAATATCCATTACAGgtaatgctca ... ccttttccagGATGCAATGCGGAAGGATACCCTAGAACGCGCAAGAGAGCCAGGGTTCGAC
EST: gi|88258873|gb|CI359263.1|CI359263
EST:     AATACTGCAAGAATCGCTATGAGCCTGCTTTTGTGGAATATCCATTACAG                         GATGCAATGCGGAAGGATACCCTAGAACGCGCAAGAGAGCCAGGGTTCGAC
genomic: AATACTGCAAGAATCGCTATGAGCCTGCTTTTGTGGAATATCCATTACAGgtaatgctca ... ccttttccagGATGCAATGCGGAAGGATACCCTAGAACGCGCAAGAGAGCCAGGGTTCGAC
EST: gi|88375895|gb|CI528199.1|CI528199
EST:     GCTTTTGTGGAATATCCATTACAG                         GATGCAATGCGGAAGGATACCCTAGAACGCGCAAGAGAGCCAGGGTTCGAC
genomic: GCTTTTGTGGAATATCCATTACAGgtaatgctca ... ccttttccagGATGCAATGCGGAAGGATACCCTAGAACGCGCAAGAGAGCCAGGGTTCGAC
EST: gi|86835561|gb|CI348018.1|CI348018
EST:     AATACTGCAAGAATCGCTATGAGCCTGCTTTTGTGGAATATCCATTACAG                         GATGCAATGCGGAAGGATACCCTAGAACGCGCAAGAGAGCCAGGGTTCGAC
genomic: AATACTGCAAGAATCGCTATGAGCCTGCTTTTGTGGAATATCCATTACAGgtaatgctca ... ccttttccagGATGCAATGCGGAAGGATACCCTAGAACGCGCAAGAGAGCCAGGGTTCGAC
EST: gi|218495655|gb|FG950469.1|FG950469
EST:     AATACTGCAAGAATCGCTATGAGCCTGCTTTAGTGGAATATCCATTACAG                         GATGCAATGCGGAAGGATACCCTAGAACGCGCAAGAGAGCCAGGATTCGAC
genomic: AATACTGCAAGAATCGCTATGAGCCTGCTTTTGTGGAATATCCATTACAGgtaatgctca ... ccttttccagGATGCAATGCGGAAGGATACCCTAGAACGCGCAAGAGAGCCAGGGTTCGAC
EST: gi|87007249|gb|CI277324.1|CI277324
EST:     AATACTGCAAGAATCGCTATGAGCCTGCTTTTGTGGAATATCCATTACAG                         GATGCAATGCGGAAGGATACCCTAGAACGCGCAAGAGAGCCAGGGTTCGAC
genomic: AATACTGCAAGAATCGCTATGAGCCTGCTTTTGTGGAATATCCATTACAGgtaatgctca ... ccttttccagGATGCAATGCGGAAGGATACCCTAGAACGCGCAAGAGAGCCAGGGTTCGAC
EST: gi|89179078|gb|CI043583.1|CI043583
EST:     AATACTGCAAGAATCGCTATGAGCCTGCTTTTGTGGAATATCCATTACAG                         GATGCAATGCGGAAGGATACCCTAGAACGCGCAAGAGAGCCAGGGTTCGAC
genomic: AATACTGCAAGAATCGCTATGAGCCTGCTTTTGTGGAATATCCATTACAGgtaatgctca ... ccttttccagGATGCAATGCGGAAGGATACCCTAGAACGCGCAAGAGAGCCAGGGTTCGAC
EST: gi|86853189|gb|CI326284.1|CI326284
EST:     TGAGCCTGCTTTTGTGGAATATCCATTACAG                         GATGCAATGCGGAAGGATACCCTAGAACGCGCAAGAGAGGCAGGGTTCGAC
genomic: TGAGCCTGCTTTTGTGGAATATCCATTACAGgtaatgctca ... ccttttccagGATGCAATGCGGAAGGATACCCTAGAACGCGCAAGAGAGCCAGGGTTCGAC
EST: gi|88252315|gb|CI350743.1|CI350743
EST:     AATACTGCAAGAATCGCTATGAGCCTGCTTTTGTGGAATATCCATTACAG                         GATGCAATGCGGAAGGATACCCTAGAACGCGCAAGAGAGCCAGGGTTCGAC
genomic: AATACTGCAAGAATCGCTATGAGCCTGCTTTTGTGGAATATCCATTACAGgtaatgctca ... ccttttccagGATGCAATGCGGAAGGATACCCTAGAACGCGCAAGAGAGCCAGGGTTCGAC
EST: gi|58592543|gb|CF990851.1|CF990851
EST:     AATACTGCAAGAATCGCTATGAGCCTGCTTTTGTGGAATATCCATTACAG                         GATGCAATGCGGAAGGATACCCTAGAACGCGCAAGAGAGCCAGGGTTCGAC
genomic: AATACTGCAAGAATCGCTATGAGCCTGCTTTTGTGGAATATCCATTACAGgtaatgctca ... ccttttccagGATGCAATGCGGAAGGATACCCTAGAACGCGCAAGAGAGCCAGGGTTCGAC
EST: gi|86853732|gb|CI330583.1|CI330583
EST:     TGCTTTTTTGGAATATCCATTACAG                         GATGCAATGCGGAAGGATACCCTAGGACGCGCAAGAGAGCCAGGGTTCGAC
genomic: TGCTTTTGTGGAATATCCATTACAGgtaatgctca ... ccttttccagGATGCAATGCGGAAGGATACCCTAGAACGCGCAAGAGAGCCAGGGTTCGAC
EST: gi|86822527|gb|CI358041.1|CI358041
EST:     CTTTTGTGGAATATCCATTACAG                         GATGCAATGCGGAA-GATACCCTAGAACGCGCAAGAGAGCCAGGGTTCGAC
genomic: CTTTTGTGGAATATCCATTACAGgtaatgctca ... ccttttccagGATGCAATGCGGAAGGATACCCTAGAACGCGCAAGAGAGCCAGGGTTCGAC
EST: gi|88286267|gb|CI522567.1|CI522567
EST:     CTGCAAGAATCGCTATGAGCCTGCTTTTGTGGAATATCCATTACAG                         GATGCAATGCGGAAGGATACCCTAGAACGCGCAAGAGAGCCAGGGTTCGAC
genomic: CTGCAAGAATCGCTATGAGCCTGCTTTTGTGGAATATCCATTACAGgtaatgctca ... ccttttccagGATGCAATGCGGAAGGATACCCTAGAACGCGCAAGAGAGCCAGGGTTCGAC
EST: gi|86597881|gb|CI276667.1|CI276667
EST:     AATACTGCAAGAATCGCTATGAGCCTGCTTTTGTGGAATATCCATTACAG                         GATGCAATGCGGAAGGATACCCTAGAACGCGCAAGAGAGCCAGGGTTCGAC
genomic: AATACTGCAAGAATCGCTATGAGCCTGCTTTTGTGGAATATCCATTACAGgtaatgctca ... ccttttccagGATGCAATGCGGAAGGATACCCTAGAACGCGCAAGAGAGCCAGGGTTCGAC
EST: gi|218496990|gb|FG950833.1|FG950833
EST:     AATACTGCAAGAATCGCTATGAGCCTGCTTTTGTGGAATATCCATTACAG                         GATGCAATGCGGAAGGATACCCT
genomic: AATACTGCAAGAATCGCTATGAGCCTGCTTTTGTGGAATATCCATTACAGgtaatgctca ... ccttttccagGATGCAATGCGGAAGGATACCCT
EST: gi|86874445|gb|CI316811.1|CI316811
EST:     AATACTGCAAGAATCGCTATGAGCCTGCTTTTGTGGAATATCCATTACAG                         GATGCAATGCGGAAGGATACCCTAGAACGCGCAAGAGAGCCAGGGTTCGAC
genomic: AATACTGCAAGAATCGCTATGAGCCTGCTTTTGTGGAATATCCATTACAGgtaatgctca ... ccttttccagGATGCAATGCGGAAGGATACCCTAGAACGCGCAAGAGAGCCAGGGTTCGAC
EST: gi|86869150|gb|CI335717.1|CI335717
EST:     TCGCTATGAGCCTGCTTTTGTGGAATATCCATTACAG                         GATGCAATGCGGAAGGATACCCTAGAACGCGCAAGAGAGCCAGGGTTCGAC
genomic: TCGCTATGAGCCTGCTTTTGTGGAATATCCATTACAGgtaatgctca ... ccttttccagGATGCAATGCGGAAGGATACCCTAGAACGCGCAAGAGAGCCAGGGTTCGAC
EST: gi|58599561|gb|CK010089.1|CK010089
EST:     AATACTGCAAGAATCGCTATGAGCCTGCTTTTGTGGAATATCCATTAGGG                         GATGCAATGCGGAAGGATACCCTAGAACGCGCAAGAGAGCCAGGNTTCGAC
genomic: AATACTGCAAGAATCGCTATGAGCCTGCTTTTGTGGAATATCCATTACAGgtaatgctca ... ccttttccagGATGCAATGCGGAAGGATACCCTAGAACGCGCAAGAGAGCCAGGGTTCGAC
EST: gi|88971739|gb|CI388980.1|CI388980
EST:     AATCGCTATGACCCTGCTTTTTTGGAATATCCATTACAG                         GATGCAATGCGGAAGGATACCCTAGAACGCGCAAGAGAGCCAGGGTTCGAC
genomic: AATCGCTATGAGCCTGCTTTTGTGGAATATCCATTACAGgtaatgctca ... ccttttccagGATGCAATGCGGAAGGATACCCTAGAACGCGCAAGAGAGCCAGGGTTCGAC
EST: gi|88464480|gb|CI544941.1|CI544941
EST:     ATATCCATTACAG                         GATGCAATGCGGAAGGATACCCTAGAACGCGCAAGAGAGCCAGGGTTCGAC
genomic: ATATCCATTACAGgtaatgctca ... ccttttccagGATGCAATGCGGAAGGATACCCTAGAACGCGCAAGAGAGCCAGGGTTCGAC
EST: gi|86908662|gb|CI318977.1|CI318977
EST:     AATACTGCAAGAATCGCTATGAGCCTGCTTTTGTGGAATATCCATTACAG                         GATGCAATGCGGAAGGATACCCTAGAACGCGCAAGAGAGCCAGGGTTCGAC
genomic: AATACTGCAAGAATCGCTATGAGCCTGCTTTTGTGGAATATCCATTACAGgtaatgctca ... ccttttccagGATGCAATGCGGAAGGATACCCTAGAACGCGCAAGAGAGCCAGGGTTCGAC
EST: gi|88508795|gb|CI436301.1|CI436301
EST:     AATACTGCAAGAATCGCTATGAGCCTGCTTTTGTGGAATATCCATTACAG                         GATGCAATGCGGAAGGATACCCTAGAACGCGCAAGAGAGGCAGGGTTCGAC
genomic: AATACTGCAAGAATCGCTATGAGCCTGCTTTTGTGGAATATCCATTACAGgtaatgctca ... ccttttccagGATGCAATGCGGAAGGATACCCTAGAACGCGCAAGAGAGCCAGGGTTCGAC
EST: gi|88409488|gb|CI561974.1|CI561974
EST:     GAATCGCTATGAGCCTGCTTTTGTGGAATATCCATTACAG                         GATGCAATGCGGAAGGATACCCTAGAACGCGCAAGAGAGCCAGGGTTCGAC
genomic: GAATCGCTATGAGCCTGCTTTTGTGGAATATCCATTACAGgtaatgctca ... ccttttccagGATGCAATGCGGAAGGATACCCTAGAACGCGCAAGAGAGCCAGGGTTCGAC
EST: gi|86600754|gb|CI356511.1|CI356511
EST:     ATACTGCAAGAATCGCTATGAGCCTGCTTTTGTGGAATATCCATTACAG                         GATGCAATGCGGAAGGATACCCTAGAACGCGCAAGAGAGCCAGGGTTCGAC
genomic: ATACTGCAAGAATCGCTATGAGCCTGCTTTTGTGGAATATCCATTACAGgtaatgctca ... ccttttccagGATGCAATGCGGAAGGATACCCTAGAACGCGCAAGAGAGCCAGGGTTCGAC
EST: gi|88283652|gb|CI405098.1|CI405098
EST:     CCTGCTTTTGTGGAATATCCATTACAG                         GATGCAATGCGGAAGGATACCCTAGAACGCGCAAGAGAGCCAGGGTTCGAC
genomic: CCTGCTTTTGTGGAATATCCATTACAGgtaatgctca ... ccttttccagGATGCAATGCGGAAGGATACCCTAGAACGCGCAAGAGAGCCAGGGTTCGAC
EST: gi|89185595|gb|CI052121.1|CI052121
EST:     AATACTGCAAGAATCGCTATGAGCCTGCTTTTGTGGAATATCCATTACAG                         GATGCAATGCGGAAGGATACCCTAGAACGCGCAAGAGAGCCAGGGTTCGAC
genomic: AATACTGCAAGAATCGCTATGAGCCTGCTTTTGTGGAATATCCATTACAGgtaatgctca ... ccttttccagGATGCAATGCGGAAGGATACCCTAGAACGCGCAAGAGAGCCAGGGTTCGAC
EST: gi|88256336|gb|CI358724.1|CI358724
EST:     TGCTTTTGTGGAATATCCATTACAG                         GATGCAATGCGGAAGGATACCCTAGAACGCGCAAGAGAGCCAGGGTTCGAC
genomic: TGCTTTTGTGGAATATCCATTACAGgtaatgctca ... ccttttccagGATGCAATGCGGAAGGATACCCTAGAACGCGCAAGAGAGCCAGGGTTCGAC
EST: gi|86528225|gb|CI168431.1|CI168431
EST:     AATACTGCAAGAATCGCTATGAGCCTGCTTTTGTGGAATATCCATTACAG                         GATGCAATGCGGAAGGATACCCTAGAACGCGCAAGAGAGCCAGGGTTCGAC
genomic: AATACTGCAAGAATCGCTATGAGCCTGCTTTTGTGGAATATCCATTACAGgtaatgctca ... ccttttccagGATGCAATGCGGAAGGATACCCTAGAACGCGCAAGAGAGCCAGGGTTCGAC
EST: gi|88265544|gb|CI376446.1|CI376446
EST:     TATCCATTACAG                         GATGCAATGCGGAAGGATACCCTAGAACGCGCAAGAGAGGCCAGGGTTCGA
genomic: TATCCATTACAGgtaatgctca ... ccttttccagGATGCAATGCGGAAGGATACCCTAGAACGCGCAAGAGA-GCCAGGGTTCGA
EST: gi|88507740|gb|CI435246.1|CI435246
EST:     CTATGAGCCTGCTTTTGTGGAATATCCATTACAG                         GATGCAATGCGGAAGGATACCCTAGAACGCGCAAGAGAGCCAGGGTTCGAC
genomic: CTATGAGCCTGCTTTTGTGGAATATCCATTACAGgtaatgctca ... ccttttccagGATGCAATGCGGAAGGATACCCTAGAACGCGCAAGAGAGCCAGGGTTCGAC
EST: gi|86881530|gb|CI322585.1|CI322585
EST:     AATACGGCAAGAATCGCTATGAGCCTGCTTTTGTGGAATATCCATTACAG                         GATGCAATGCGGAAGGATACCCTAGAACGCGCAAGAGAGCCAGGGTTCGAC
genomic: AATACTGCAAGAATCGCTATGAGCCTGCTTTTGTGGAATATCCATTACAGgtaatgctca ... ccttttccagGATGCAATGCGGAAGGATACCCTAGAACGCGCAAGAGAGCCAGGGTTCGAC
EST: gi|88427973|gb|CI554481.1|CI554481
EST:     TTGTGGAATATCCATTACAG                         GATGCAATGCGGAAGGATACCCTAGAACGCGCAAGAGAGCCAGGGTTCGAC
genomic: TTGTGGAATATCCATTACAGgtaatgctca ... ccttttccagGATGCAATGCGGAAGGATACCCTAGAACGCGCAAGAGAGCCAGGGTTCGAC
EST: gi|33798947|gb|CF325331.1|CF325331
EST:     AATACTGCAAGAATCGCTATGAGCCTGCTTTTGTGGAATATCCATTACAG                         GATGCAATGCGGAAGGATACCCTAGAACGCGCAAGAGAGCCAGGGTTCGAC
genomic: AATACTGCAAGAATCGCTATGAGCCTGCTTTTGTGGAATATCCATTACAGgtaatgctca ... ccttttccagGATGCAATGCGGAAGGATACCCTAGAACGCGCAAGAGAGCCAGGGTTCGAC
EST: gi|88449442|gb|CI534001.1|CI534001
EST:     GAATCGCTATGAGCCTGCTTTTGTGGAATATCCATTACAG                         GATGCAATGCGGAAGGATACCCTAGAACGCGCAAGAGAGCCAGGGTTCGAC
genomic: GAATCGCTATGAGCCTGCTTTTGTGGAATATCCATTACAGgtaatgctca ... ccttttccagGATGCAATGCGGAAGGATACCCTAGAACGCGCAAGAGAGCCAGGGTTCGAC
EST: gi|86881762|gb|CI324077.1|CI324077
EST:     AATACTGCAAGAATCGCTATGAGCCTGCTTTTGTGGAATATCCATTACAG                         GATGCAATGCGGAAGGATACCCTAGAACGCGCAAGAGAGCCAGGGTTCGAC
genomic: AATACTGCAAGAATCGCTATGAGCCTGCTTTTGTGGAATATCCATTACAGgtaatgctca ... ccttttccagGATGCAATGCGGAAGGATACCCTAGAACGCGCAAGAGAGCCAGGGTTCGAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aattcaaccttcaaactgaaatcaaccaataacgtctcatcattcccttttccagGATGCAATGCGGAAGGATACCCTAGAACGCGCAAGAGAGCCAGGGTTCGACCTCAAAGGATACCTGATGAATGCCTACATCCACCCGGTGTTCAAAGGCG
                          caataac  putative branch site (score: 2)
                                cgtctcatcattccct  CT-rich tract
                  aaatcaa  TA-rich tract