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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gctgcgctaagtgcttttacctgttttgtatggtatgcatattcctttggcaggtttacttaatgtccaaaatctgatactcgttttcctgtttttgcagTGAAGTCATTTCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCTTCCTTGGCTACAAGGCTGGCATGACTCACATTGTCCGTGAGGTTGAGAA

Basic information

species Zea mays
transcript GRMZM2G135727_T01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G135727_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os11g06750.1 (Oryza sativa), 3'ss of exon 2
----gctgcgctaagtgcttttacctgttttgtatggta-tgcatattcctttggcaggtttacttaatgtccaaaatctgatactcgttttcctgtttttgcagTGAAGTCATTTCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCTTCCTTGGCTACAAGGCTGGCATGACTCACATTGTCCGTGAGGTTGAGAA
     ||      |||  | ||  | ||    | | | | |||   ||  ||  |   | ||||  | |  |   ||||||||| |   ||  ||||| |||||||||||||||| |||| |||||||  ||| || || ||||| |||||  ||||  | || ||||||||||| ||||| |||||||| |||||||| |||||
tttttcttgttccagtcgtcttctcggtgccattttgcactgccagttgtttatgtgtgattac--actacc---aatctgatattttgttctctgttattgcagTGAAGTCATTCCCCAAGGATGACGTCAACAAACCATGCCACCTCACCTCCTTTGTCGGTTACAAGGCTGGAATGACCCACATTGTGCGTGAGGTCGAGAA
















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|211090378|gb|FL409094.1|FL409094
EST:     CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGC-GCAAGG                         TGAAGTCATTTCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT
genomic: CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGCGGCAAGGgtacgcgcgc ... gtttttgcagTGAAGTCATTTCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT
EST: gi|211310954|gb|FL375976.1|FL375976
EST:     CTCCCTCGGCTTCCTTCCCAGG-AGCGCTCCTCCCGCCACCGC-GCAAGG                         TGAAGTCATTTCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT
genomic: CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGCGGCAAGGgtacgcgcgc ... gtttttgcagTGAAGTCATTTCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT
EST: gi|211090116|gb|FL396349.1|FL396349
EST:     CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGC-GCAAGG                         TGAAGTCATTTCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT
genomic: CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGCGGCAAGGgtacgcgcgc ... gtttttgcagTGAAGTCATTTCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT
EST: gi|211275659|gb|FL423577.1|FL423577
EST:     CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGCGCCAAGG                         TGAAGTCATTTCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT
genomic: CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGCGGCAAGGgtacgcgcgc ... gtttttgcagTGAAGTCATTTCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT
EST: gi|211127326|gb|FL391785.1|FL391785
EST:     CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGCG-CAAGG                         TGAAGTCATTTCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT
genomic: CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGCGGCAAGGgtacgcgcgc ... gtttttgcagTGAAGTCATTTCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT
EST: gi|211449441|gb|FL371193.1|FL371193
EST:     CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGC-GCAAGG                         TGAAGTCATTTCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT
genomic: CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGCGGCAAGGgtacgcgcgc ... gtttttgcagTGAAGTCATTTCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT
EST: gi|211143441|gb|FL420875.1|FL420875
EST:     CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGCG-CAAGG                         TGAAGTCATTTCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT
genomic: CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGCGGCAAGGgtacgcgcgc ... gtttttgcagTGAAGTCATTTCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT
EST: gi|211390616|gb|FL418025.1|FL418025
EST:     CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGC-GCAAGG                         TGAAGTCATTTCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT
genomic: CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGCGGCAAGGgtacgcgcgc ... gtttttgcagTGAAGTCATTTCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT
EST: gi|211512093|gb|FL429019.1|FL429019
EST:     CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGC-GCAAGG                         TGAAGTCATTTCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT
genomic: CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGCGGCAAGGgtacgcgcgc ... gtttttgcagTGAAGTCATTTCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT
EST: gi|211054045|gb|FL387661.1|FL387661
EST:     CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGCGGCAAGG                         TGAAGTCATTTCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT
genomic: CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGCGGCAAGGgtacgcgcgc ... gtttttgcagTGAAGTCATTTCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT
EST: gi|78122260|gb|DV540644.1|DV540644
EST:     CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGCGGCAGGG                         AGAAGTCTTTTCCCAGGGATGACCCCAAAAAGCCTTGCCATCTCACTGCCT
genomic: CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGCGGCAAGGgtacgcgcgc ... gtttttgcagTGAAGTCATTTCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT
EST: gi|211332072|gb|FL381804.1|FL381804
EST:     CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGC-GCAAGG                         TGAAGTCATTTCCMAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT
genomic: CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGCGGCAAGGgtacgcgcgc ... gtttttgcagTGAAGTCATTTCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT
EST: gi|211522091|gb|FL426849.1|FL426849
EST:     CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGCGTCAAGG                         TGAAGTCATTTCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT
genomic: CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGCGGCAAGGgtacgcgcgc ... gtttttgcagTGAAGTCATTTCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT
EST: gi|211158132|gb|FL392760.1|FL392760
EST:     CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGC-GCAAGG                         TGAAGTCATTTCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT
genomic: CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGCGGCAAGGgtacgcgcgc ... gtttttgcagTGAAGTCATTTCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT
EST: gi|211221704|gb|FL402207.1|FL402207
EST:     CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGC-GCAAGG                         TGAAGTCATTTCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT
genomic: CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGCGGCAAGGgtacgcgcgc ... gtttttgcagTGAAGTCATTTCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT
EST: gi|211080224|gb|FL420002.1|FL420002
EST:     CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGCG-CAAGG                         TGAAGTCATTTCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT
genomic: CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGCGGCAAGGgtacgcgcgc ... gtttttgcagTGAAGTCATTTCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT
EST: gi|211209612|gb|FL397447.1|FL397447
EST:     CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGC-GCAAGG                         TGAAGTCATTTCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT
genomic: CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGCGGCAAGGgtacgcgcgc ... gtttttgcagTGAAGTCATTTCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT
EST: gi|211390088|gb|FL395682.1|FL395682
EST:     CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGCGGCAAGG                         TGAAGTCATTTCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT
genomic: CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGCGGCAAGGgtacgcgcgc ... gtttttgcagTGAAGTCATTTCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT
EST: gi|211013857|gb|FL374962.1|FL374962
EST:     CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGC-GCAAGG                         TGAAGTCATTTCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT
genomic: CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGCGGCAAGGgtacgcgcgc ... gtttttgcagTGAAGTCATTTCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT
EST: gi|211045469|gb|FL401139.1|FL401139
EST:     CTCMCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGC-GCAAGG                         TGAAGTCATTTCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT
genomic: CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGCGGCAAGGgtacgcgcgc ... gtttttgcagTGAAGTCATTTCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT
EST: gi|211290580|gb|FL410149.1|FL410149
EST:     CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGCGNCAAGG                         TGAAGTCATTTCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT
genomic: CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGCGGCAAGGgtacgcgcgc ... gtttttgcagTGAAGTCATTTCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT
EST: gi|211045111|gb|FL385036.1|FL385036
EST:     CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGC-GCAAGG                         TGAAGTCATTTCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT
genomic: CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGCGGCAAGGgtacgcgcgc ... gtttttgcagTGAAGTCATTTCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT
EST: gi|211076737|gb|FL399050.1|FL399050
EST:     CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGCGGCAAGG                         TGAAGTCATTTCCCAGGGATGACCCCNAGAAGCCTTGCCATCTCACTGCCT
genomic: CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGCGGCAAGGgtacgcgcgc ... gtttttgcagTGAAGTCATTTCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT
EST: gi|211143439|gb|FL420873.1|FL420873
EST:     CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGCGNCAAGG                         TGAAGTCATTTCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT
genomic: CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGCGGCAAGGgtacgcgcgc ... gtttttgcagTGAAGTCATTTCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT
EST: gi|211490707|gb|FL394879.1|FL394879
EST:     CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGC-GCAAGG                         TGAAGTCATTTCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT
genomic: CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGCGGCAAGGgtacgcgcgc ... gtttttgcagTGAAGTCATTTCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT
EST: gi|211209607|gb|FL397442.1|FL397442
EST:     CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGC-GCAAGG                         TGAAGTCATTTCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT
genomic: CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGCGGCAAGGgtacgcgcgc ... gtttttgcagTGAAGTCATTTCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT
EST: gi|211118724|gb|FL427527.1|FL427527
EST:     CTCMCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGC-GCAAGG                         TGAAGTCATTTCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT
genomic: CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGCGGCAAGGgtacgcgcgc ... gtttttgcagTGAAGTCATTTCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT
EST: gi|211045112|gb|FL385037.1|FL385037
EST:     CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGC-GCAAGG                         TGAAGTCATTTCCACAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCC
genomic: CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGCGGCAAGGgtacgcgcgc ... gtttttgcagTGAAGTCATTTCC-CAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttggcaggtttacttaatgtccaaaatctgatactcgttttcctgtttttgcagTGAAGTCATTTCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCTTCCTTGGCTACAAGGCTGGCATGACTCACATTGTCCGTGAGGTTGAGAA
                          atctgat  putative branch site (score: 4)
                                  ctcgttttcctgtttt  CT-rich tract
         tttacttaat  TA-rich tract