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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atgcataaattgaatttaagaactgaaacttgctattttgtaccattccagaaagagcgttataatttcccactttacctgacatttgttccacgtgcagAGGAAGACCCTTCAACAAAGGTACCCAAAGTAGAAGTGCCTCAGGTAAGGCCTGTTATTATGCCTAATTCGCTAGGCATGGCATTTCCTCCGCGACCAGC

Basic information

species Zea mays
transcript GRMZM2G081812_T01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G081812_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os09g38790.1 (Oryza sativa), 3'ss of exon 2
atgcataaattgaatttaagaactgaaacttgctattt-tgtaccattccagaaagagcgttataa----tttcccactttacctgacatttgttccacgtgcagAGGAAGACCCTTCAACAAAGGTACCCAAAGTAGAAGTGCCTCAGGTAAGGCCTGTTATTATGCCTAATTCGCTAGGCATGGCATTTCCTCCGCGACCAGC
     | | |    | || ||| | ||  || |  |   | || |   ||| | |      |||||    ||    ||||||  |      ||||| |  ||||||||||||||||||| | |||||| ||||||| ||||||||   | ||||||||  | ||||||| ||| |    ||||||| || |||||| ||||| ||
-----ttattcatgtgtaggaattaaatattccagtgagtttaaccagccatatattttcctataagaacttgttaactttatttagttcatgttctaaatgcagAGGAAGACCCTTCATCGAAGGTAGCCAAAGTGGAAGTGCCATCGCTAAGGCCTCCTGTTATGCCCAATCCAGCGGGCATGGTATATCCTCCACGACCGGC
















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|211062251|gb|FL249756.1|FL249756
EST:     TGGAATGCAGGGAATTCCTGCGCATGTATTGGCTGCTCATTATGGAGAAG                         AGGAAGACCCTTCAACAAAGGTACCCAAAAGTAGAAGTGCCTCAGGTAAGG
genomic: TGGAATGCAGGGAATTCCTGCGCATGTATTGGCTGCTCATTATGGAGAAGgtatgcagat ... ccacgtgcagAGGAAGACCCTTCAACAAAGGTACCC-AAAGTAGAAGTGCCTCAGGTAAGG
EST: gi|31361671|gb|CD446028.1|CD446028
EST:     TGGAATGCAGGGAATTCCTGCGCATGTATTGGCTGCTCATTATGGAGAAG                         AGGAAGACCCTTCAACAAAGGTACCCAAAGTAGAAGTGCCTCAGGTAAGGC
genomic: TGGAATGCAGGGAATTCCTGCGCATGTATTGGCTGCTCATTATGGAGAAGgtatgcagat ... ccacgtgcagAGGAAGACCCTTCAACAAAGGTACCCAAAGTAGAAGTGCCTCAGGTAAGGC
EST: gi|71325031|gb|DR799198.1|DR799198
EST:     TGGAATGCAGGGAATTCCTGCGCATGTATTGGCTGCTCATTATGGAGAAG                         AGGAAGACCCTTCAACAAAGGTACCCAAAGTAGAAGTGCCTCAGGTAAGGC
genomic: TGGAATGCAGGGAATTCCTGCGCATGTATTGGCTGCTCATTATGGAGAAGgtatgcagat ... ccacgtgcagAGGAAGACCCTTCAACAAAGGTACCCAAAGTAGAAGTGCCTCAGGTAAGGC
EST: gi|24462593|gb|BM660124.1|BM660124
EST:     ATTATGGAGAAG                         AGGAAGACCCTTCAACAAAGGTACCCAAAGTAGAAGTGCCTCAGGTAAGGC
genomic: ATTATGGAGAAGgtatgcagat ... ccacgtgcagAGGAAGACCCTTCAACAAAGGTACCCAAAGTAGAAGTGCCTCAGGTAAGGC
EST: gi|74034907|gb|DT535397.1|DT535397
EST:     TGGAATGCAGGGAATTCCTGCGCATGTATTGGCTGCTCATTATGGAGAAG                         AGGAAGACCCTTCAACAAAGGTACCCAAAGTAGAAGTGTCTCAGGTAAGGC
genomic: TGGAATGCAGGGAATTCCTGCGCATGTATTGGCTGCTCATTATGGAGAAGgtatgcagat ... ccacgtgcagAGGAAGACCCTTCAACAAAGGTACCCAAAGTAGAAGTGCCTCAGGTAAGGC
EST: gi|26457010|gb|CA828593.1|CA828593
EST:     TGGAATGCAGGGAATTCCTTCGCATGTATTGGCTGCTCATTATGGAGAAG                         AGGAAGACCCTTCAACAAAGGTACCCAAAGTAGAAGTGCCTCAGGTAAGGC
genomic: TGGAATGCAGGGAATTCCTGCGCATGTATTGGCTGCTCATTATGGAGAAGgtatgcagat ... ccacgtgcagAGGAAGACCCTTCAACAAAGGTACCCAAAGTAGAAGTGCCTCAGGTAAGGC
EST: gi|211108805|gb|FL115292.1|FL115292
EST:     TGGAATGCAGGGAATTCCTGCGCATGTATTGGCTGCTCATTATGGAGAAG                         AGGAAGACCCTTCAACAAAGGTACCCAAAGTAGAAGTGCCTCAGGTAAGGC
genomic: TGGAATGCAGGGAATTCCTGCGCATGTATTGGCTGCTCATTATGGAGAAGgtatgcagat ... ccacgtgcagAGGAAGACCCTTCAACAAAGGTACCCAAAGTAGAAGTGCCTCAGGTAAGGC
EST: gi|22818963|gb|BU499053.1|BU499053
EST:     TGGAATGCAGGGAATTCCTTCGCATGTATTGGCTGCTCATTATGGAGAAG                         AGGAAGACCCTTCAACAAAGGTACCCAAAGTAGAAGTGCCTCAGGTAAGGC
genomic: TGGAATGCAGGGAATTCCTGCGCATGTATTGGCTGCTCATTATGGAGAAGgtatgcagat ... ccacgtgcagAGGAAGACCCTTCAACAAAGGTACCCAAAGTAGAAGTGCCTCAGGTAAGGC
EST: gi|211109705|gb|FL115302.1|FL115302
EST:     TGGAATGCAGGGAATTCCTGCGCATGTATTGGCTGCTCATTATGGAGAAG                         AGGAAGACCCTTCAACAAAGGTACCCAAAGTAGAAGTGCCTCAGGTAAGGC
genomic: TGGAATGCAGGGAATTCCTGCGCATGTATTGGCTGCTCATTATGGAGAAGgtatgcagat ... ccacgtgcagAGGAAGACCCTTCAACAAAGGTACCCAAAGTAGAAGTGCCTCAGGTAAGGC
EST: gi|87155380|gb|DY400169.1|DY400169
EST:     TGGAATGCAGGGAATTCCTTCGCATGTATTGGCTGCTCATTATGGAGAAG                         AGGAAGACCCTTCAACAAAGGTACCCAAAGTAGAAGTGCCTCAGGTAAGGC
genomic: TGGAATGCAGGGAATTCCTGCGCATGTATTGGCTGCTCATTATGGAGAAGgtatgcagat ... ccacgtgcagAGGAAGACCCTTCAACAAAGGTACCCAAAGTAGAAGTGCCTCAGGTAAGGC
EST: gi|26457257|gb|CA828840.1|CA828840
EST:     TGGAATGCAGGGAATTCCTTCGCATGTATTGGCTGCTCATTATGGAGAAG                         AGGAAGACCCTTCAACAAAGGTACCCAAAGTAGAAGTGCCTCAGGTAAGGC
genomic: TGGAATGCAGGGAATTCCTGCGCATGTATTGGCTGCTCATTATGGAGAAGgtatgcagat ... ccacgtgcagAGGAAGACCCTTCAACAAAGGTACCCAAAGTAGAAGTGCCTCAGGTAAGGC
EST: gi|29946767|gb|CB816315.1|CB816315
EST:     TGGAATGCAGGGAATTCCTGCGCATGTATTGGCTGCTCATTATGGAGAAG                         AGGAAGACCCTTCAACAAAGGTACCCAAAGTAGAAGTGGCTCAGGTAAGGC
genomic: TGGAATGCAGGGAATTCCTGCGCATGTATTGGCTGCTCATTATGGAGAAGgtatgcagat ... ccacgtgcagAGGAAGACCCTTCAACAAAGGTACCCAAAGTAGAAGTGCCTCAGGTAAGGC
EST: gi|32910104|gb|CF014916.1|CF014916
EST:     TGGAATGCAGGGAATTCCTGCGCATGTATTGGCTGCTCATTATGGAGAAG                         AGGAAGACCCTTCAACAAAGGTACCCAAAGTAGAAGTGCCTCAGGTAAGGC
genomic: TGGAATGCAGGGAATTCCTGCGCATGTATTGGCTGCTCATTATGGAGAAGgtatgcagat ... ccacgtgcagAGGAAGACCCTTCAACAAAGGTACCCAAAGTAGAAGTGCCTCAGGTAAGGC
EST: gi|211108807|gb|FL115294.1|FL115294
EST:     TGGAATGCAGGGAATTCCTGCGCATGTATTGGCTGCTCATTATGGAGAAG                         AGGAAGACCCTTCAACAAAGGTACCCAAAGTAGAAGTGCCTCA
genomic: TGGAATGCAGGGAATTCCTGCGCATGTATTGGCTGCTCATTATGGAGAAGgtatgcagat ... ccacgtgcagAGGAAGACCCTTCAACAAAGGTACCCAAAGTAGAAGTGCCTCA
EST: gi|26559878|gb|CA832113.1|CA832113
EST:     TGGAATGCAGGGAATTCCTTCGCATGTATTGGCTGCTCATTATGGAGAAG                         AGGAAGACCCTTCAACAAAGGTACCCAAAGTAGAAGTGCCTCAGGTAAGGC
genomic: TGGAATGCAGGGAATTCCTGCGCATGTATTGGCTGCTCATTATGGAGAAGgtatgcagat ... ccacgtgcagAGGAAGACCCTTCAACAAAGGTACCCAAAGTAGAAGTGCCTCAGGTAAGGC
EST: gi|22543269|gb|BU093707.1|BU093707
EST:     TGGAATGCAGGGAATTCCTTCGCATGTATTGGCTGCTCATTATGGAGAAG                         AGGAAGACCCTTCAACAAAGGTACCCAAAGTAGAAG-GCCTCAGGTAAGGC
genomic: TGGAATGCAGGGAATTCCTGCGCATGTATTGGCTGCTCATTATGGAGAAGgtatgcagat ... ccacgtgcagAGGAAGACCCTTCAACAAAGGTACCCAAAGTAGAAGTGCCTCAGGTAAGGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttccagaaagagcgttataatttcccactttacctgacatttgttccacgtgcagAGGAAGACCCTTCAACAAAGGTACCCAAAGTAGAAGTGCCTCAGGTAAGGCCTGTTATTATGCCTAATTCGCTAGGCATGGCATTTCCTCCGCGACCAGC
                               acctgac  putative branch site (score: 3)
                                       tttgttcc  CT-rich tract
              ttataattt  TA-rich tract