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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaagcatatgtacaactatctgggtaatttttctcttcctttgttcgttgttatcttatgattgagctttggcatgatccagGGCATCGCTATTGCGGTTAAATGTGGAGCCACCAAAGCAGACTTCGACAGCACT

Basic information

species Zea mays
transcript GRMZM5G806449_T02
intron # 14
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|19350945|gb|BM895477.1|BM895477
EST:     AAGTACTTGGTGCATCCATGTGTGGACCAGACGCACCTGAAATTATCCAG                         GGCATCGCTATTGCGGTTAAATGTGGAGCCACCAAAGCAGACTTCGACAGC
genomic: AAGTACTTGGTGCATCCATGTGTGGACCAGACGCACCTGAAATTATCCAGgtaaagcata ... catgatccagGGCATCGCTATTGCGGTTAAATGTGGAGCCACCAAAGCAGACTTCGACAGC
EST: gi|76293304|gb|DV032872.1|DV032872
EST:     AAGTACTTGGTGCATCCATGTGTGGACCAGACGCACCTGAAATTATCCAG                         GGCATCGCTATTGCGGTTAAATGTGGAGCCACCAAAGCAGACTTCGACAGC
genomic: AAGTACTTGGTGCATCCATGTGTGGACCAGACGCACCTGAAATTATCCAGgtaaagcata ... catgatccagGGCATCGCTATTGCGGTTAAATGTGGAGCCACCAAAGCAGACTTCGACAGC
EST: gi|19350946|gb|BM895478.1|BM895478
EST:     AAGTACTTGGTGCATCCATGTGTGGACCAGACGCACCTGAAATTATCCAG                         GGCATCGCTATTGCGGTTAAATGTGGAGCCACCAAAGCAGACTTCGACAGC
genomic: AAGTACTTGGTGCATCCATGTGTGGACCAGACGCACCTGAAATTATCCAGgtaaagcata ... catgatccagGGCATCGCTATTGCGGTTAAATGTGGAGCCACCAAAGCAGACTTCGACAGC
EST: gi|37378953|gb|CF626201.1|CF626201
EST:     AAGTACTTGGTGCATCCATGTGTGGACCAGACGCACCTGAAATTATCCAG                         GGCATCGCTATTGCGGTTAAATGTGGAGCCACCAAAGCAGACTTCGACAGC
genomic: AAGTACTTGGTGCATCCATGTGTGGACCAGACGCACCTGAAATTATCCAGgtaaagcata ... catgatccagGGCATCGCTATTGCGGTTAAATGTGGAGCCACCAAAGCAGACTTCGACAGC
EST: gi|211368053|gb|FL471715.1|FL471715
EST:     AAGTACTTGGTGCATCCATGTGTGGACCAGACGCACCTGAAATTATCCAG                         GGCATCGCTATTGCGGTTAAATGTGGAGCCACCAAAGCAGACTTCGACAGC
genomic: AAGTACTTGGTGCATCCATGTGTGGACCAGACGCACCTGAAATTATCCAGgtaaagcata ... catgatccagGGCATCGCTATTGCGGTTAAATGTGGAGCCACCAAAGCAGACTTCGACAGC
EST: gi|47961792|gb|CN844501.1|CN844501
EST:     AAGTACTTGGTGCATCCATGTGTGGACCAGACGCACCTGAAATTATCCAG                         GGCATCGCTATTGCGGTTAAATGTGGAGCCACCAAAGCAGACTTCGACAGC
genomic: AAGTACTTGGTGCATCCATGTGTGGACCAGACGCACCTGAAATTATCCAGgtaaagcata ... catgatccagGGCATCGCTATTGCGGTTAAATGTGGAGCCACCAAAGCAGACTTCGACAGC
EST: gi|58030045|gb|CX725472.1|CX725472
EST:     AAGTACTTGGTGCATCCATGTGTGGACCAGACGCACCTGAAATTATCCAG                         GGCATCGCTATTGCGGTTAAATGTGGAGCCACCAAAGCAGACTTCGACAGC
genomic: AAGTACTTGGTGCATCCATGTGTGGACCAGACGCACCTGAAATTATCCAGgtaaagcata ... catgatccagGGCATCGCTATTGCGGTTAAATGTGGAGCCACCAAAGCAGACTTCGACAGC
EST: gi|33102541|gb|CF062501.1|CF062501
EST:     AAGTACTTGGTGCATCCATGTGTGGACCAGACGCACCTGAAATTATCCAG                         GGTATCGCTATTGCGGTTAAATGTGGAGCCACCAAAGCAGACTTCGACAGC
genomic: AAGTACTTGGTGCATCCATGTGTGGACCAGACGCACCTGAAATTATCCAGgtaaagcata ... catgatccagGGCATCGCTATTGCGGTTAAATGTGGAGCCACCAAAGCAGACTTCGACAGC
EST: gi|37380707|gb|CF627182.1|CF627182
EST:     AAGTACTTGGTGCATCCATGTGTGGACCAGACGCACCTGAAATTATCCAG                         GGCATCGCTATTGCGGTTAAATGTGGAGCCACCAAAGCAGACTTCGACAGC
genomic: AAGTACTTGGTGCATCCATGTGTGGACCAGACGCACCTGAAATTATCCAGgtaaagcata ... catgatccagGGCATCGCTATTGCGGTTAAATGTGGAGCCACCAAAGCAGACTTCGACAGC
EST: gi|14646262|gb|BI180451.1|BI180451
EST:     AAGTACTTGGTGCATCCATGTGTGGACCAGACGCACCTGAAATTATCCAG                         GGCATCGCTATTGCGGTAAAATGTGGAGCCACCAAAGCAGACTTCGACAGC
genomic: AAGTACTTGGTGCATCCATGTGTGGACCAGACGCACCTGAAATTATCCAGgtaaagcata ... catgatccagGGCATCGCTATTGCGGTTAAATGTGGAGCCACCAAAGCAGACTTCGACAGC
EST: gi|37395251|gb|CF634905.1|CF634905
EST:     AAGTACTTGGTGCATCCATGTGTGGACCAGACGCACCTGAAATTATCCAG                         GGCATCGCTATTGCGGTTAAATGTGGAGCCACCAAAGCAGACTTCGACAGC
genomic: AAGTACTTGGTGCATCCATGTGTGGACCAGACGCACCTGAAATTATCCAGgtaaagcata ... catgatccagGGCATCGCTATTGCGGTTAAATGTGGAGCCACCAAAGCAGACTTCGACAGC
EST: gi|71757895|gb|DR955832.1|DR955832
EST:     AAGTACTTGGTGCATCCATGTGTGGACCAGACGCCCCTGAAATTATCCAG                         GGCATCGCTATTGCGGTTAAATGTGGAGCCACCAAAGCAGACTTCGACAGC
genomic: AAGTACTTGGTGCATCCATGTGTGGACCAGACGCACCTGAAATTATCCAGgtaaagcata ... catgatccagGGCATCGCTATTGCGGTTAAATGTGGAGCCACCAAAGCAGACTTCGACAGC
EST: gi|76012766|gb|DT939936.1|DT939936
EST:     AAGTACTTGGTGCATCCATGTGTGGACCAGACGCACCTGAAATTATCCAG                         GGCATCGCTATTGCGGTTAAATGTGGAGCCACCAAAGCAGACTTCGACAGC
genomic: AAGTACTTGGTGCATCCATGTGTGGACCAGACGCACCTGAAATTATCCAGgtaaagcata ... catgatccagGGCATCGCTATTGCGGTTAAATGTGGAGCCACCAAAGCAGACTTCGACAGC
EST: gi|16916633|gb|BM072928.1|BM072928
EST:     AAGTACTTGGTGCATCCATGTGTGGACCAGACGCACCTGAAATTATCCAG                         GGCATCGCTATTGCGGTTAAATGTGGAGCCACCAAAGCAGACTTCGACAGC
genomic: AAGTACTTGGTGCATCCATGTGTGGACCAGACGCACCTGAAATTATCCAGgtaaagcata ... catgatccagGGCATCGCTATTGCGGTTAAATGTGGAGCCACCAAAGCAGACTTCGACAGC
EST: gi|110942635|gb|EE162792.1|EE162792
EST:     AAGTACTTGGTGCATCCATGTGTGGACCAGACGCACCTGAAATTATCCAG                         GGCATCGCTATTGCGGTTAAATGTGGAGCCACCAAAGCAGACTTCGACAGC
genomic: AAGTACTTGGTGCATCCATGTGTGGACCAGACGCACCTGAAATTATCCAGgtaaagcata ... catgatccagGGCATCGCTATTGCGGTTAAATGTGGAGCCACCAAAGCAGACTTCGACAGC
EST: gi|31405874|gb|CD484606.1|CD484606
EST:     AAGTACTTGGTGCATCCATGTGTGGACCAGACGCACCTGAAATTATCCAG                         GGCATCGCTATTGCGGTTAAATGTGGAGCCACCAAAGCAGACTTCGACAGC
genomic: AAGTACTTGGTGCATCCATGTGTGGACCAGACGCACCTGAAATTATCCAGgtaaagcata ... catgatccagGGCATCGCTATTGCGGTTAAATGTGGAGCCACCAAAGCAGACTTCGACAGC
EST: gi|91056621|gb|EB167039.1|EB167039
EST:     AAGTACTTGGTGCATCCATGTGTGGACCAGACGCACCTGAAATTATCCAG                         GGCATCGCTATTGCGGTTAAATGTGGAGCCACCAAAGCAGACTTCGACAGC
genomic: AAGTACTTGGTGCATCCATGTGTGGACCAGACGCACCTGAAATTATCCAGgtaaagcata ... catgatccagGGCATCGCTATTGCGGTTAAATGTGGAGCCACCAAAGCAGACTTCGACAGC
EST: gi|56382549|gb|CV985218.1|CV985218
EST:     AAGTACTTGGTGCATCCATGTGTGGACCAGACGCACCTGAAATTATCCAG                         GGCATCGCTATTGCGGTTAAATGTGGAGCCACCAAAGCAGACTTCGACAGC
genomic: AAGTACTTGGTGCATCCATGTGTGGACCAGACGCACCTGAAATTATCCAGgtaaagcata ... catgatccagGGCATCGCTATTGCGGTTAAATGTGGAGCCACCAAAGCAGACTTCGACAGC
EST: gi|71310532|gb|DR791561.1|DR791561
EST:     AAGTACTTGGTGCATCCATGTGTGGACCAGACGCACCTGAAATTATCCAG                         GGCATCGCTATTGCGGTTAAATGTGGAGCCACCAAAGCAGACTTCGACAGC
genomic: AAGTACTTGGTGCATCCATGTGTGGACCAGACGCACCTGAAATTATCCAGgtaaagcata ... catgatccagGGCATCGCTATTGCGGTTAAATGTGGAGCCACCAAAGCAGACTTCGACAGC
EST: gi|37381448|gb|CF627611.1|CF627611
EST:     AAGTACTTGGTGCATCCATGTGTGGACCAGACGCACCTGAAATTATCCAG                         GGCATCGCTATTGCGGTTAAATGTGGAGCCACCAAAGCAGACTTCGACAGC
genomic: AAGTACTTGGTGCATCCATGTGTGGACCAGACGCACCTGAAATTATCCAGgtaaagcata ... catgatccagGGCATCGCTATTGCGGTTAAATGTGGAGCCACCAAAGCAGACTTCGACAGC
EST: gi|6095693|gb|AW120360.1|AW120360
EST:     AAGTACTTGGTGCATCCATGTGTGGACCAGACGCACCTGAAATTATCCAG                         GGCATCGCTATTGCGGTTAAATGTGGAGCCACCAAAGCAGACTTCGGCAGC
genomic: AAGTACTTGGTGCATCCATGTGTGGACCAGACGCACCTGAAATTATCCAGgtaaagcata ... catgatccagGGCATCGCTATTGCGGTTAAATGTGGAGCCACCAAAGCAGACTTCGACAGC
EST: gi|67025835|gb|CO454584.1|CO454584
EST:     AAGTACTTGGTGCATCCATGTGTGGACCAGACGCACCTGAAATTATCCAG                         GGCATCGCTATTGCGGTTAAATGTGGAGCCACCAAAGCAGACTTCGACAGC
genomic: AAGTACTTGGTGCATCCATGTGTGGACCAGACGCACCTGAAATTATCCAGgtaaagcata ... catgatccagGGCATCGCTATTGCGGTTAAATGTGGAGCCACCAAAGCAGACTTCGACAGC
EST: gi|31664369|gb|CD573094.1|CD573094
EST:     AAGTACTTGGTGCATCCATGTGTGGACCAGACGCACCTGAAATTATCCAG                         GGCATCGCTATTGCGGTTAAATGTGGAGCCACCAAAGCAGACTTCGACAGC
genomic: AAGTACTTGGTGCATCCATGTGTGGACCAGACGCACCTGAAATTATCCAGgtaaagcata ... catgatccagGGCATCGCTATTGCGGTTAAATGTGGAGCCACCAAAGCAGACTTCGACAGC
EST: gi|37377035|gb|CF625088.1|CF625088
EST:     AAGTACTTGGTGCATCCATGTGTGGACCAGACGCACCTGAAATTATCCAG                         GGCATCGCTATTGCGGTTAAATGTGGAGCCACCAAAGCAGACTTCGACAGC
genomic: AAGTACTTGGTGCATCCATGTGTGGACCAGACGCACCTGAAATTATCCAGgtaaagcata ... catgatccagGGCATCGCTATTGCGGTTAAATGTGGAGCCACCAAAGCAGACTTCGACAGC
EST: gi|14243079|gb|BG840745.2|BG840745
EST:     AAGTACTTGGTGCATCCATGTGTGGACCAGACGCACCTGAAATTATCCAG                         GGCATCGCTATTGCGGTTAAATGTGGAGCCACCAAAGCAGACTTCGACAGC
genomic: AAGTACTTGGTGCATCCATGTGTGGACCAGACGCACCTGAAATTATCCAGgtaaagcata ... catgatccagGGCATCGCTATTGCGGTTAAATGTGGAGCCACCAAAGCAGACTTCGACAGC
EST: gi|16927664|gb|BM080733.1|BM080733
EST:     AAGTACTTGGTGCATCCATGTGTGGACCAGACGCACCTGAAATTATCCAG                         GGCATCGCTATTGCGGTTAAATGTGGAGCCACCAAAGCAGACTTCGACAGC
genomic: AAGTACTTGGTGCATCCATGTGTGGACCAGACGCACCTGAAATTATCCAGgtaaagcata ... catgatccagGGCATCGCTATTGCGGTTAAATGTGGAGCCACCAAAGCAGACTTCGACAGC
EST: gi|31664100|gb|CD573280.1|CD573280
EST:     AAGTACTTGGTGCATCCATGTGTGGACCAGACGCACCTGAAATTATCCAG                         GGCATCGCTATTGCGGTTAAATGTGGAGCCACCAAAGCAGACTTCGACAGC
genomic: AAGTACTTGGTGCATCCATGTGTGGACCAGACGCACCTGAAATTATCCAGgtaaagcata ... catgatccagGGCATCGCTATTGCGGTTAAATGTGGAGCCACCAAAGCAGACTTCGACAGC
EST: gi|5670916|gb|AI932179.1|AI932179
EST:     CTTGGTGCATCCATGTGTGGACCAGACGCACCTGAAATTATCCAG                         GGCATCGCTATTGCGGTTAAATGTGGAGCCACCAAAGCAGACTTCGACAGC
genomic: CTTGGTGCATCCATGTGTGGACCAGACGCACCTGAAATTATCCAGgtaaagcata ... catgatccagGGCATCGCTATTGCGGTTAAATGTGGAGCCACCAAAGCAGACTTCGACAGC
EST: gi|30088227|gb|CB886432.1|CB886432
EST:     AAGTACTTGGTGCATCCATGTGTGGACCAGACGCACCTGAAATTATCCAG                         GGCATCGCTATTGCGGTTAAATGTGGAGCCACCAAAGCAGACTTCGACAGC
genomic: AAGTACTTGGTGCATCCATGTGTGGACCAGACGCACCTGAAATTATCCAGgtaaagcata ... catgatccagGGCATCGCTATTGCGGTTAAATGTGGAGCCACCAAAGCAGACTTCGACAGC
EST: gi|31611972|gb|CD568594.1|CD568594
EST:     AAGTACTTGGTGCATCCATGTGTGGACCAGACGCACCTGAAATTATCCAG                         GGCATCGCTATTGCGGTTAAATGTGGAGCCACCAAAGCAGACTTCGACAGC
genomic: AAGTACTTGGTGCATCCATGTGTGGACCAGACGCACCTGAAATTATCCAGgtaaagcata ... catgatccagGGCATCGCTATTGCGGTTAAATGTGGAGCCACCAAAGCAGACTTCGACAGC
EST: gi|148937230|gb|EC881412.2|EC881412
EST:     AAGTACTTGGTGCATCCATGTGTGGACCAGACGCACCTGAAATTATCCAG                         GGCATCGCTATTGCGGTTAAATGTGGAGCCACCAAAGCAGACTTCGACAGC
genomic: AAGTACTTGGTGCATCCATGTGTGGACCAGACGCACCTGAAATTATCCAGgtaaagcata ... catgatccagGGCATCGCTATTGCGGTTAAATGTGGAGCCACCAAAGCAGACTTCGACAGC
EST: gi|71311903|gb|DR792430.1|DR792430
EST:     AAGTACTTGGTGCATCCATGTGTGGACCAGACGCACCTGAAATTATCCAG                         GGCATCGCTATTGCGGTTAAATGTGGAGCCACCAAAGCAGACTTCGACAGC
genomic: AAGTACTTGGTGCATCCATGTGTGGACCAGACGCACCTGAAATTATCCAGgtaaagcata ... catgatccagGGCATCGCTATTGCGGTTAAATGTGGAGCCACCAAAGCAGACTTCGACAGC
EST: gi|45847417|gb|CN071360.1|CN071360
EST:     AAGTACTTGGTGCATCCATGTGTGGACCAGACGCACCTGAAATTATCCAG                         GGCATCGCTATTGCGGTAAAATGTGGAGCCACCAAAGCAGACTTCGACAGC
genomic: AAGTACTTGGTGCATCCATGTGTGGACCAGACGCACCTGAAATTATCCAGgtaaagcata ... catgatccagGGCATCGCTATTGCGGTTAAATGTGGAGCCACCAAAGCAGACTTCGACAGC
EST: gi|149077607|gb|EE166307.2|EE166307
EST:     AAGTACTTGGTGCATCCATGTGTGGACCAGACGCACCTGAAATTATCCAG                         GGCATCGCTATTGCGGTTAAATGTGGAGCCACCAAAGCAGACTTCGACAGC
genomic: AAGTACTTGGTGCATCCATGTGTGGACCAGACGCACCTGAAATTATCCAGgtaaagcata ... catgatccagGGCATCGCTATTGCGGTTAAATGTGGAGCCACCAAAGCAGACTTCGACAGC
EST: gi|6031612|gb|AI668515.2|AI668515
EST:     AAGTACTTGGTGCATCCATGTGTGGACCAGACGCACCTGAAATTATCCAG                         GGCATCGCTATTGCGGTTAAATGTGGAGCCACCAAAGCAGACTTCGACAGC
genomic: AAGTACTTGGTGCATCCATGTGTGGACCAGACGCACCTGAAATTATCCAGgtaaagcata ... catgatccagGGCATCGCTATTGCGGTTAAATGTGGAGCCACCAAAGCAGACTTCGACAGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttttctcttcctttgttcgttgttatcttatgattgagctttggcatgatccagGGCATCGCTATTGCGGTTAAATGTGGAGCCACCAAAGCAGACTTCGACAGCACT
                       ttatcttat  TA-rich tract
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaagcatatgtacaactatctgggtaatttttctcttcctttgttcgttgttatcttatgattgagctttggcatgatccagGGCATCGCTATTGCGGTTAAATGTGGAGCCACCAAAGCAGACTTCGACAGCACT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG