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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATATATTCGTGTCCTCCGAATTAGTCCTTCCTGCAGTGTCCTCGCCGACAGGGAAAGCCGTGTTGCAAGAAGGGGAATTCCGCTGCGAGATCCGTGAACGgtcagttcgcaatcactcttgactgtgtgtatgatttcagatcatgacgcgagcttagcgcgtacatatgtcgtgagcttagtggagttctgaatccggc...

Basic information

species Zea mays
transcript GRMZM2G125556_T01
intron # 1
splice site 5'
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|29167717|gb|CB410977.1|CB410977
EST:     GGGAAAGCCGTGTTGCAAGAAGGGGAATTCCGCTGCGAGATCCGTGAACG                         GTTCAGAGATGGCACAGACGGTGTTCACCCCCTCTTTGGAAGCGATGAAGC
genomic: GGGAAAGCCGTGTTGCAAGAAGGGGAATTCCGCTGCGAGATCCGTGAACGgtcagttcgc ... tttcttgcagGTTCAGAGATGGCACAGACGGTGTTCACCCCCTCTTTGGAAGCGATGAAGC
EST: gi|211466770|gb|FL298415.1|FL298415
EST:     GGGAAAGCCGTGTTGCAAGAAGGGGAATTCCGCTGCGAGATCCGTGAACG                         GTTCAGAGATGGCACAGACGGTGTTCACCCCCTCTTTGGAAGCGATGAAGC
genomic: GGGAAAGCCGTGTTGCAAGAAGGGGAATTCCGCTGCGAGATCCGTGAACGgtcagttcgc ... tttcttgcagGTTCAGAGATGGCACAGACGGTGTTCACCCCCTCTTTGGAAGCGATGAAGC
EST: gi|76285485|gb|DV025053.1|DV025053
EST:     GGGAAAGCCGTGTTGCAAGAAGGGGAATTCCGCTGCGAGATCCGTGAACG                         GTTCAGAGATGGCACAGACGGTGTTCACCCCCTCTTTGGAAGCGATGAAGC
genomic: GGGAAAGCCGTGTTGCAAGAAGGGGAATTCCGCTGCGAGATCCGTGAACGgtcagttcgc ... tttcttgcagGTTCAGAGATGGCACAGACGGTGTTCACCCCCTCTTTGGAAGCGATGAAGC
EST: gi|211466772|gb|FL298417.1|FL298417
EST:     GGGAAAGCCGTGTTGCAAGAAGGGGAATTCCGCTGCGAGATCCGTGAACG                         GTTCAGAGATGGCACAGACGGTGTTCACCCCCTCTTTGGAAGCGATGAAGC
genomic: GGGAAAGCCGTGTTGCAAGAAGGGGAATTCCGCTGCGAGATCCGTGAACGgtcagttcgc ... tttcttgcagGTTCAGAGATGGCACAGACGGTGTTCACCCCCTCTTTGGAAGCGATGAAGC
EST: gi|116820850|gb|EC864112.1|EC864112
EST:     GGGAAAGCCGTGTTGCAAGAAGGGGAATTCCGCTGCGAGATCCGTGAACG                         GTTCAGAGATGGCACAGACGGTGTTCACCCCCTCTTTGGAAGCGATGAAGC
genomic: GGGAAAGCCGTGTTGCAAGAAGGGGAATTCCGCTGCGAGATCCGTGAACGgtcagttcgc ... tttcttgcagGTTCAGAGATGGCACAGACGGTGTTCACCCCCTCTTTGGAAGCGATGAAGC
EST: gi|91056435|gb|EB166853.1|EB166853
EST:     GGGAAAGCCGTGTTGCAAGAAGGGGAATTCCGCTGCGAGATCCGTGAACG                         GTTCAGAGATGGCACAGACGGTGTTCACCCCCTCTTTGGAAGCGATGAAGC
genomic: GGGAAAGCCGTGTTGCAAGAAGGGGAATTCCGCTGCGAGATCCGTGAACGgtcagttcgc ... tttcttgcagGTTCAGAGATGGCACAGACGGTGTTCACCCCCTCTTTGGAAGCGATGAAGC
EST: gi|211464240|gb|FL298404.1|FL298404
EST:     GGGAAAGCCGTGTTGCAAGAAGGGGAATTCCGCTGCGAGATCCGTGAACG                         GTTCAGAGATGGCACAGACGGTGTTCACCCCCTCTTTGGAAGCGATGAAGC
genomic: GGGAAAGCCGTGTTGCAAGAAGGGGAATTCCGCTGCGAGATCCGTGAACGgtcagttcgc ... tttcttgcagGTTCAGAGATGGCACAGACGGTGTTCACCCCCTCTTTGGAAGCGATGAAGC
EST: gi|211041272|gb|FL124819.1|FL124819
EST:     GGGAAAGCCGTGTTGCAAGAAGGGGAATTCCGCTGCGAGATCCGTGAACG                         GTTCAGAGATGGCACAGACGGTGTTCACCCCCTCTTTGGAAGCGATGAAGC
genomic: GGGAAAGCCGTGTTGCAAGAAGGGGAATTCCGCTGCGAGATCCGTGAACGgtcagttcgc ... tttcttgcagGTTCAGAGATGGCACAGACGGTGTTCACCCCCTCTTTGGAAGCGATGAAGC
EST: gi|211041274|gb|FL124821.1|FL124821
EST:     GGGAAAGCCGTGTTGCAAGAAGGGGAATTCCGCTGCGAGATCCGTGAACG                         GTTCAGAGATGGCACAGACGGTGTTCACCCCCTCTTTGGAAGCGATGAAGC
genomic: GGGAAAGCCGTGTTGCAAGAAGGGGAATTCCGCTGCGAGATCCGTGAACGgtcagttcgc ... tttcttgcagGTTCAGAGATGGCACAGACGGTGTTCACCCCCTCTTTGGAAGCGATGAAGC
EST: gi|211475759|gb|FL124816.1|FL124816
EST:     GGGAAAGCCGTGTTGCAAGAAGGGGAATTCCGCTGCGAGATCCGTGAACG                         GTTCAGAGATGGCACAGACGGTGTTCACCCCCTCTTTGGAAGCGATGAAGC
genomic: GGGAAAGCCGTGTTGCAAGAAGGGGAATTCCGCTGCGAGATCCGTGAACGgtcagttcgc ... tttcttgcagGTTCAGAGATGGCACAGACGGTGTTCACCCCCTCTTTGGAAGCGATGAAGC
EST: gi|211464236|gb|FL298400.1|FL298400
EST:     GGGAAAGCCGTGTTGCAAGAAGGGGAATTCCGCTGCGAGATCCGTGAACG                         GTTCAGAGATGGCACAGACGGTGTTCACCCCCTCTTTGGAAGCGATGAAGC
genomic: GGGAAAGCCGTGTTGCAAGAAGGGGAATTCCGCTGCGAGATCCGTGAACGgtcagttcgc ... tttcttgcagGTTCAGAGATGGCACAGACGGTGTTCACCCCCTCTTTGGAAGCGATGAAGC
EST: gi|211466766|gb|FL298411.1|FL298411
EST:     GGGAAAGCCGTGTTGCAAGAAGGGGAATTCCGCTGCGAGATCCGTGAACG                         GTTCAGAGATGGCACAGACGGTGTTCACCCCCTCTTTGGAAGCGATGAAGC
genomic: GGGAAAGCCGTGTTGCAAGAAGGGGAATTCCGCTGCGAGATCCGTGAACGgtcagttcgc ... tttcttgcagGTTCAGAGATGGCACAGACGGTGTTCACCCCCTCTTTGGAAGCGATGAAGC
EST: gi|211466762|gb|FL298407.1|FL298407
EST:     GGGAAAGCCGTGTTGCAAGAAGGGGAATTCCGCTGCGAGATCCGTGAACG                         GTTCAGAGATGGCACAGACGGTGTTCACCCCCTCTTTGGAAGCGATGAAGC
genomic: GGGAAAGCCGTGTTGCAAGAAGGGGAATTCCGCTGCGAGATCCGTGAACGgtcagttcgc ... tttcttgcagGTTCAGAGATGGCACAGACGGTGTTCACCCCCTCTTTGGAAGCGATGAAGC
EST: gi|211464239|gb|FL298403.1|FL298403
EST:     GGGAAAGCCGTGTTGCAAGAAGGGGAATTCCGCTGCGAGATCCGTGAACG                         GTTCAGAGATGGCACAGACGGTGTTCACCCCCTCTTTGGAAGCGATGAAGC
genomic: GGGAAAGCCGTGTTGCAAGAAGGGGAATTCCGCTGCGAGATCCGTGAACGgtcagttcgc ... tttcttgcagGTTCAGAGATGGCACAGACGGTGTTCACCCCCTCTTTGGAAGCGATGAAGC
EST: gi|211041277|gb|FL124824.1|FL124824
EST:     GGNAAAGCCGTGTTGCAAGAAGGGGAATTCCGCTGCGAGATCCGTGAA--                         ---C-GAGATGGCACAGACGGTGTTCACCCCCTCTTTGGAAGCGATGAAGC
genomic: GGGAAAGCCGTGTTGCAAGAAGGGGAATTCCGCTGCGAGATCCGTGAACGgtcagttcgc ... tttcttgcagGTTCAGAGATGGCACAGACGGTGTTCACCCCCTCTTTGGAAGCGATGAAGC
EST: gi|211464237|gb|FL298401.1|FL298401
EST:     GGGAAAGCCGTGTTGCAAGAAGGGGAATTCCGCTGCGAGATCCGTGAACG                         GTTCAGAGATGGCACAGACGGTGTTCACCCCCTCTTTGGAAGCGATGAAGC
genomic: GGGAAAGCCGTGTTGCAAGAAGGGGAATTCCGCTGCGAGATCCGTGAACGgtcagttcgc ... tttcttgcagGTTCAGAGATGGCACAGACGGTGTTCACCCCCTCTTTGGAAGCGATGAAGC
EST: gi|211466761|gb|FL298406.1|FL298406
EST:     GGGAAAGCCGTGTTGCAAGAAGGGGAATTCCGCTGCGAGATCCGTGAACG                         GTTCAGAGATGGCACAGACGGTGTTCACCCCCTCTTTGGAAGCGATGAAGC
genomic: GGGAAAGCCGTGTTGCAAGAAGGGGAATTCCGCTGCGAGATCCGTGAACGgtcagttcgc ... tttcttgcagGTTCAGAGATGGCACAGACGGTGTTCACCCCCTCTTTGGAAGCGATGAAGC
EST: gi|76283007|gb|DV022575.1|DV022575
EST:     GGGAAAGCCGTGTTGCAAGAAGGGGAATTCCGCTGCGAGATCCGTGAACG                         GTTCAGAGATGGCACAGACGGTGTTCACCCCCTCTTTGGAAGCGATGAAGC
genomic: GGGAAAGCCGTGTTGCAAGAAGGGGAATTCCGCTGCGAGATCCGTGAACGgtcagttcgc ... tttcttgcagGTTCAGAGATGGCACAGACGGTGTTCACCCCCTCTTTGGAAGCGATGAAGC
EST: gi|211466767|gb|FL298412.1|FL298412
EST:     GGGAAAGCCGTGTTGCAAGAAGGGGAATTCCGCTGCGAGATCCGTGAACG                         GTTCAGAGATGGCACAGACGGTGTTCACCCCCTCTTTGGAAGCGATGAAGC
genomic: GGGAAAGCCGTGTTGCAAGAAGGGGAATTCCGCTGCGAGATCCGTGAACGgtcagttcgc ... tttcttgcagGTTCAGAGATGGCACAGACGGTGTTCACCCCCTCTTTGGAAGCGATGAAGC
EST: gi|211041276|gb|FL124823.1|FL124823
EST:     GGGAAAGCCGTGTTGCAAGAAGGGGAATTCCGCTGCGAGATCCGTGAA--                         ---C-GAGATGGCACAGACGGTGTTCACCCCCTCTTTGGAAGCGATGAAGC
genomic: GGGAAAGCCGTGTTGCAAGAAGGGGAATTCCGCTGCGAGATCCGTGAACGgtcagttcgc ... tttcttgcagGTTCAGAGATGGCACAGACGGTGTTCACCCCCTCTTTGGAAGCGATGAAGC
EST: gi|211041273|gb|FL124820.1|FL124820
EST:     GG-AAAGCCGTGTTGCAAGAAGGGGAATTCCGCTGCGAGATCCGTGAACG                         GTTCAGAGATGGCACAGACGGTGTTCACCCCCTCTTTGGAAGCGATGAAGC
genomic: GGGAAAGCCGTGTTGCAAGAAGGGGAATTCCGCTGCGAGATCCGTGAACGgtcagttcgc ... tttcttgcagGTTCAGAGATGGCACAGACGGTGTTCACCCCCTCTTTGGAAGCGATGAAGC
EST: gi|211466771|gb|FL298416.1|FL298416
EST:     GGGAAAGCCGTGTTGCAAGAAGGGGAATTCCGCTGCGAGATCCGTGAACG                         GTTCAGAGATGGCACAGACGGTGTTCACCCCCTCTTTGGAAGCGATGAAGC
genomic: GGGAAAGCCGTGTTGCAAGAAGGGGAATTCCGCTGCGAGATCCGTGAACGgtcagttcgc ... tttcttgcagGTTCAGAGATGGCACAGACGGTGTTCACCCCCTCTTTGGAAGCGATGAAGC
EST: gi|211475757|gb|FL124814.1|FL124814
EST:     GGGAAAGCCGTGTTGCAAGAAGGGGAATTCCGCTGCGAGATCCGTGAACG                         GTTCAGAGATGGCACAGACGGTGTTCACCCCCTCTTTGGAAGCGATGAAGC
genomic: GGGAAAGCCGTGTTGCAAGAAGGGGAATTCCGCTGCGAGATCCGTGAACGgtcagttcgc ... tttcttgcagGTTCAGAGATGGCACAGACGGTGTTCACCCCCTCTTTGGAAGCGATGAAGC
EST: gi|211475755|gb|FL124812.1|FL124812
EST:     GGAAAAGCCGTGTTGCAAGAAGGGGAATTCCGCTGCGAGATCCGTGAACG                         GTTCAGAGATGGCACAGACGGTGTTCACCCCCTCTTTGGAAGCGATGAAGC
genomic: GGGAAAGCCGTGTTGCAAGAAGGGGAATTCCGCTGCGAGATCCGTGAACGgtcagttcgc ... tttcttgcagGTTCAGAGATGGCACAGACGGTGTTCACCCCCTCTTTGGAAGCGATGAAGC
EST: gi|71421128|gb|DR805308.1|DR805308
EST:     GGGAAAGCCGTGTTGCAAGAAGGGGAATTCCGCTGCGAGATCCGTGAACG                         GTTCAGAGATGGCACAGACGGTGTTCACCCCCTCTTTGGAAGCGATGAAGC
genomic: GGGAAAGCCGTGTTGCAAGAAGGGGAATTCCGCTGCGAGATCCGTGAACGgtcagttcgc ... tttcttgcagGTTCAGAGATGGCACAGACGGTGTTCACCCCCTCTTTGGAAGCGATGAAGC
EST: gi|211041270|gb|FL124817.1|FL124817
EST:     GGGAAAGCCGTGTTGCAAGAAGGGGAATTCCGCTGCGAGATCCGTGAACG                         GTTCAGAGATGGCACAGACGGTGTTCACCCCCTCTTTGGAAGCGATGAAGC
genomic: GGGAAAGCCGTGTTGCAAGAAGGGGAATTCCGCTGCGAGATCCGTGAACGgtcagttcgc ... tttcttgcagGTTCAGAGATGGCACAGACGGTGTTCACCCCCTCTTTGGAAGCGATGAAGC
EST: gi|211041271|gb|FL124818.1|FL124818
EST:     GGGAAAGCCGTGTTGCAAGAAGGGGAATTCCGCTGCGAGATCCGTGAACG                         GTTCAGAGATGGCACAGACGGTGTTCACCCCCTCTTTGGAAGCGATGAAGC
genomic: GGGAAAGCCGTGTTGCAAGAAGGGGAATTCCGCTGCGAGATCCGTGAACGgtcagttcgc ... tttcttgcagGTTCAGAGATGGCACAGACGGTGTTCACCCCCTCTTTGGAAGCGATGAAGC
EST: gi|93282356|gb|EB674620.1|EB674620
EST:     GGGAAAGCCGTGTTGCAAGAAGGGGAATTCCGCTGCGAGATCCGTGAACG                         GTTCAGAGATGGCACAGACGGTGTTCACCCCCTCTTTGGAAGCGATGAAGC
genomic: GGGAAAGCCGTGTTGCAAGAAGGGGAATTCCGCTGCGAGATCCGTGAACGgtcagttcgc ... tttcttgcagGTTCAGAGATGGCACAGACGGTGTTCACCCCCTCTTTGGAAGCGATGAAGC
EST: gi|211475756|gb|FL124813.1|FL124813
EST:     GGGAAAGCCGTGTTGCAAGAAGGGGAATTCCGCTGCGAGATCCGTGAACG                         GTTCAGAGATGGCACAGACGGTGTTCACCCCCTCTTTGGAAGCGATGAAGC
genomic: GGGAAAGCCGTGTTGCAAGAAGGGGAATTCCGCTGCGAGATCCGTGAACGgtcagttcgc ... tttcttgcagGTTCAGAGATGGCACAGACGGTGTTCACCCCCTCTTTGGAAGCGATGAAGC
EST: gi|211464238|gb|FL298402.1|FL298402
EST:     -GGAAAGCCGTGTTGCAAGAAGGGGAATTCCGCTGCGAGATCCGTGAACG                         GTTCAGAGATGGCACAGACGGTGTTCACCCCCTCTTTGGAAGCGATGAAGC
genomic: GGGAAAGCCGTGTTGCAAGAAGGGGAATTCCGCTGCGAGATCCGTGAACGgtcagttcgc ... tttcttgcagGTTCAGAGATGGCACAGACGGTGTTCACCCCCTCTTTGGAAGCGATGAAGC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATATATTCGTGTCCTCCGAATTAGTCCTTCCTGCAGTGTCCTCGCCGACAGGGAAAGCCGTGTTGCAAGAAGGGGAATTCCGCTGCGAGATCCGTGAACGgtcagttcgcaatcactcttgactgtgtgtatgatttcagatcatgacgcgagcttagcgcgtacatatgtcgtgagcttagtggagttctgaatccggc

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC