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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cccaacacacaaaattggacggtggtgaaatcgggtgacaagcattagtttttccatgtttgacacgaagtttcctaaatcacatgtttacctttggtagGACAAGTGAAGGAAGCAGCTGAAGTCTGATCCTGTGGATTCAGTCGGATCGTGGCCATGGCTTAATTTCCACCGGACATGCTGGGCTTCCACCGGACATG

Basic information

species Zea mays
transcript GRMZM2G024933_T02
intron # 3
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|60341886|gb|DN208859.1|DN208859
EST:     ATACATTGGGTTTCAACCGCTATTATAAAGAAGAGAAACAATACCAAGTG                         GACAAGTGAAGGAAGCAGCTGAAGTCTGATCCTGTGGATTCAGTCGGATCG
genomic: ATACATTGGGTTTCAACCGCTATTATAAAGAAGAGAAACAATACCAAGTGgtgagttggg ... cctttggtagGACAAGTGAAGGAAGCAGCTGAAGTCTGATCCTGTGGATTCAGTCGGATCG
EST: gi|78026194|gb|DV494581.1|DV494581
EST:     ATACATTGGGTTTCAACCGCTATTATAAAGAAGAGAAACAATACCAAGTG                         GACAAGTGAAGGAAGCAGCTGAAGTCTGATCCTGTGGATTCAGCCGGATCG
genomic: ATACATTGGGTTTCAACCGCTATTATAAAGAAGAGAAACAATACCAAGTGgtgagttggg ... cctttggtagGACAAGTGAAGGAAGCAGCTGAAGTCTGATCCTGTGGATTCAGTCGGATCG
EST: gi|24769243|gb|CA404372.1|CA404372
EST:     ATACATTGGGTTTCAACCGCTATTATAAAGAAGAGAAACAATACCAAGTG                         GACAAGTGAAGGAAGCAGCTGAAGTCTGATCCTGTGGATTCAGTCGGATCG
genomic: ATACATTGGGTTTCAACCGCTATTATAAAGAAGAGAAACAATACCAAGTGgtgagttggg ... cctttggtagGACAAGTGAAGGAAGCAGCTGAAGTCTGATCCTGTGGATTCAGTCGGATCG
EST: gi|113703278|gb|EE680782.1|EE680782
EST:     ATACATTGGGTTTCAACCGCTATTATAAAGAAGAGAAACAATACCAAGTG                         GACAAGTGAAGGAAGCAGCTGAAGTCTGATCCTGTGGATTCAGTCGGATCG
genomic: ATACATTGGGTTTCAACCGCTATTATAAAGAAGAGAAACAATACCAAGTGgtgagttggg ... cctttggtagGACAAGTGAAGGAAGCAGCTGAAGTCTGATCCTGTGGATTCAGTCGGATCG
EST: gi|31364216|gb|CD448571.1|CD448571
EST:     ATACATTGGGTTTCAACCGCTATTATAAAGAAGAGAAACAATACCAAGTG                         GACAAGTGAAGGAAGCAGCTGAAGTCTGATCCTGTGGATTCAGTCGGATCG
genomic: ATACATTGGGTTTCAACCGCTATTATAAAGAAGAGAAACAATACCAAGTGgtgagttggg ... cctttggtagGACAAGTGAAGGAAGCAGCTGAAGTCTGATCCTGTGGATTCAGTCGGATCG
EST: gi|76293357|gb|DV032925.1|DV032925
EST:     ATACATTGGGTTTCAACCGCTATTATAAAGAAGAGAAACAATACCAAGTG                         GACAAGTGAAGGAAGCAGCTGAAGTCTGATCCTGTGGATTCAGTCGGATCG
genomic: ATACATTGGGTTTCAACCGCTATTATAAAGAAGAGAAACAATACCAAGTGgtgagttggg ... cctttggtagGACAAGTGAAGGAAGCAGCTGAAGTCTGATCCTGTGGATTCAGTCGGATCG
EST: gi|18172482|gb|BM347870.1|BM347870
EST:     ATACATTGGGTTTCAACCGCTATTATAAAGAAGAGAAACAATACCAAGTG                         GACAAGTGAAGGAAGCAGCTGAAGTCTGATCCTGTGGATTCAGTCGGATCG
genomic: ATACATTGGGTTTCAACCGCTATTATAAAGAAGAGAAACAATACCAAGTGgtgagttggg ... cctttggtagGACAAGTGAAGGAAGCAGCTGAAGTCTGATCCTGTGGATTCAGTCGGATCG
EST: gi|44901416|gb|CK827961.1|CK827961
EST:     ATACATTGGGTTTCAACCGCTATTATAAAGAAGAGAAACAATACCAAGTG                         GACAAGTGAAGGAAGCAGCTGAAGTCTGATCCTGTGGATTCAGTCGGATCG
genomic: ATACATTGGGTTTCAACCGCTATTATAAAGAAGAGAAACAATACCAAGTGgtgagttggg ... cctttggtagGACAAGTGAAGGAAGCAGCTGAAGTCTGATCCTGTGGATTCAGTCGGATCG
EST: gi|211229302|gb|FL468746.1|FL468746
EST:     ATACATTGGGTTTCAACCGCTATTATAAAGAAGAGAAACAATACCAAGTG                         GACAAGTGAAGGAAGCAGCTGAAGTCTGATCCTGTGGATTCAGTCGGATCG
genomic: ATACATTGGGTTTCAACCGCTATTATAAAGAAGAGAAACAATACCAAGTGgtgagttggg ... cctttggtagGACAAGTGAAGGAAGCAGCTGAAGTCTGATCCTGTGGATTCAGTCGGATCG
EST: gi|93282820|gb|EB675084.1|EB675084
EST:     ATACATTGGGTTTCAACCGCTATTATAAAGAAGAGAAACAATACCAAGTG                         GACAAGTGAAGGAAGCAGCTGAAGTCTGATCCTGTGGATTCAGTCGGATCG
genomic: ATACATTGGGTTTCAACCGCTATTATAAAGAAGAGAAACAATACCAAGTGgtgagttggg ... cctttggtagGACAAGTGAAGGAAGCAGCTGAAGTCTGATCCTGTGGATTCAGTCGGATCG
EST: gi|32942254|gb|CF047073.1|CF047073
EST:     ATACATTGGGTTTCAACCGCTATTATAAAGAAGAGAAACAATACCAAGTG                         GACAAGTGAAGGAAGCAGCTGAAGTCTGATCCTGTGGATTCAGTCGGATCG
genomic: ATACATTGGGTTTCAACCGCTATTATAAAGAAGAGAAACAATACCAAGTGgtgagttggg ... cctttggtagGACAAGTGAAGGAAGCAGCTGAAGTCTGATCCTGTGGATTCAGTCGGATCG
EST: gi|38688331|gb|CK145362.1|CK145362
EST:     ATACATTGGGTTTCAACCGCTATTATAAAGAAGAGAAACAATACCAAGTG                         GACAAGTGAAGGAAGCAGCTGAAGTCTGATCCTGTGGATTCAGTCGGATCG
genomic: ATACATTGGGTTTCAACCGCTATTATAAAGAAGAGAAACAATACCAAGTGgtgagttggg ... cctttggtagGACAAGTGAAGGAAGCAGCTGAAGTCTGATCCTGTGGATTCAGTCGGATCG
EST: gi|18171523|gb|BM341363.1|BM341363
EST:     ATACATTGGGTTTCAACCGCTATTATAAAGAAGAGAAACAATACCAAGTG                         GACAAGTGAAGGAAGCAGCTGAAGTCTGATCCTGTGGATTCAGTCGGATCG
genomic: ATACATTGGGTTTCAACCGCTATTATAAAGAAGAGAAACAATACCAAGTGgtgagttggg ... cctttggtagGACAAGTGAAGGAAGCAGCTGAAGTCTGATCCTGTGGATTCAGTCGGATCG
EST: gi|30031545|gb|CB833396.1|CB833396
EST:     ATACATTGGGTTTCAACCGCTATTATAAAGAAGAGAAACAATACCAAGTG                         GACAAGTGAAGGAAGCAGCTGAAGTCTGATCCTGTGGATTCAGTCGGATCG
genomic: ATACATTGGGTTTCAACCGCTATTATAAAGAAGAGAAACAATACCAAGTGgtgagttggg ... cctttggtagGACAAGTGAAGGAAGCAGCTGAAGTCTGATCCTGTGGATTCAGTCGGATCG
EST: gi|5455707|gb|AI833397.1|AI833397
EST:     ATACATTGGGTTTCAACCGCTATTATAAAGAAGAGAAACAATACCAAGTG                         GACAAGTGAAGGAAGCAGCTGAAGTCTGATCCTGTGGATTCAGCCGGATCG
genomic: ATACATTGGGTTTCAACCGCTATTATAAAGAAGAGAAACAATACCAAGTGgtgagttggg ... cctttggtagGACAAGTGAAGGAAGCAGCTGAAGTCTGATCCTGTGGATTCAGTCGGATCG
EST: gi|60351705|gb|DN218678.1|DN218678
EST:     ATACATTGGGTTTCAACCGCTATTATAAAGAAGAGAAACAATACCAAGTG                         GACAAGTGAAGGAAGCAGCTGAAGTCTGATCCTGTGGATTCAGTCGGATCG
genomic: ATACATTGGGTTTCAACCGCTATTATAAAGAAGAGAAACAATACCAAGTGgtgagttggg ... cctttggtagGACAAGTGAAGGAAGCAGCTGAAGTCTGATCCTGTGGATTCAGTCGGATCG
EST: gi|51592996|gb|CV072142.1|CV072142
EST:     ATACATTGGGTTTCAACCGCTATTATAAAGAAGAGAAACAATACCAAGTG                         GACAAGTGAAGGAAGCAGCTGGAGTCTGATCCTGTGGATTCAGTCGGATCG
genomic: ATACATTGGGTTTCAACCGCTATTATAAAGAAGAGAAACAATACCAAGTGgtgagttggg ... cctttggtagGACAAGTGAAGGAAGCAGCTGAAGTCTGATCCTGTGGATTCAGTCGGATCG
EST: gi|211354730|gb|FL460388.1|FL460388
EST:     ATACATTGGGTTTCAACCGCTATTATAAAGAAGAGAAACAATACCAAGTG                         GACAAGTGAAGGAAGCAGCTGAAGTCTGATCCTGTGGATTCAGTCGGATCG
genomic: ATACATTGGGTTTCAACCGCTATTATAAAGAAGAGAAACAATACCAAGTGgtgagttggg ... cctttggtagGACAAGTGAAGGAAGCAGCTGAAGTCTGATCCTGTGGATTCAGTCGGATCG
EST: gi|149004805|gb|EE039309.2|EE039309
EST:     ATACATTGGGTTTCAACCGCTATTATAAAGAAGAGAAACAATACCAAGTG                         GACAAGTGAAGGAAGCAGCTGAAGTCTGATCCTGTGGATTCAGTCGGATCG
genomic: ATACATTGGGTTTCAACCGCTATTATAAAGAAGAGAAACAATACCAAGTGgtgagttggg ... cctttggtagGACAAGTGAAGGAAGCAGCTGAAGTCTGATCCTGTGGATTCAGTCGGATCG
EST: gi|32843745|gb|CD983426.1|CD983426
EST:     ATACATTGGGTTTCAACCGCTATTATAAAGAAGAGAAACAATACCAAGTG                         GACAAGTGAAGGAAGCAGCTGAAGTCTGATCCTGTGGATTCAGTCGGATCG
genomic: ATACATTGGGTTTCAACCGCTATTATAAAGAAGAGAAACAATACCAAGTGgtgagttggg ... cctttggtagGACAAGTGAAGGAAGCAGCTGAAGTCTGATCCTGTGGATTCAGTCGGATCG
EST: gi|60350437|gb|DN217410.1|DN217410
EST:     ATACATTGGGTTTCAACCGCTATTATAAAGAAGAGAAACAATACCAAGTG                         GACAAGTGAAGGAAGCAGCTGAAGTCTGATCCTGTGGATTCAGTCGGATCG
genomic: ATACATTGGGTTTCAACCGCTATTATAAAGAAGAGAAACAATACCAAGTGgtgagttggg ... cctttggtagGACAAGTGAAGGAAGCAGCTGAAGTCTGATCCTGTGGATTCAGTCGGATCG
EST: gi|149095031|gb|EE180630.2|EE180630
EST:     ATACATTGGGTTTCAACCGCTATTATAAAGAAGAGAAACAATACCAAGTG                         GACAAGTGAAGGAAGCAGCTGAAGTCTGATCCTGTGGATTCAGTCGGATCG
genomic: ATACATTGGGTTTCAACCGCTATTATAAAGAAGAGAAACAATACCAAGTGgtgagttggg ... cctttggtagGACAAGTGAAGGAAGCAGCTGAAGTCTGATCCTGTGGATTCAGTCGGATCG
EST: gi|71308603|gb|DR790541.1|DR790541
EST:     ATACATTGGGTTTCAACCGCTATTATAAAGAAGAGAAACAATACCAAGTG                         GACAAGTGAAGGAAGCAGCTGAAGTCTGATCCTGTGGATTCAGTCGGATCG
genomic: ATACATTGGGTTTCAACCGCTATTATAAAGAAGAGAAACAATACCAAGTGgtgagttggg ... cctttggtagGACAAGTGAAGGAAGCAGCTGAAGTCTGATCCTGTGGATTCAGTCGGATCG
EST: gi|149103697|gb|EE289099.2|EE289099
EST:     ATACATTGGGTTTCAACCGCTATTATAAAGAAGAGAAACAATACCAAGTG                         GACAAGTGAAGGAAGCAGCTGAAGTCTGATCCTGTGGATTCAGTCGGATCG
genomic: ATACATTGGGTTTCAACCGCTATTATAAAGAAGAGAAACAATACCAAGTGgtgagttggg ... cctttggtagGACAAGTGAAGGAAGCAGCTGAAGTCTGATCCTGTGGATTCAGTCGGATCG
EST: gi|60341207|gb|DN208180.1|DN208180
EST:     ATACATTGGGTTTCAACCGCTATTATAAAGAAGAGAAACAATACCAAGTG                         GACAAGTGAAGGAAGCAGCTGAAGTCTGATCCTGTGGATTCAGTCGGATCG
genomic: ATACATTGGGTTTCAACCGCTATTATAAAGAAGAGAAACAATACCAAGTGgtgagttggg ... cctttggtagGACAAGTGAAGGAAGCAGCTGAAGTCTGATCCTGTGGATTCAGTCGGATCG
EST: gi|71428383|gb|DR809433.1|DR809433
EST:     ATACATTGGGTTTCAACCGCTATTATAAAGAAGAGAAACAATACCAAGTG                         GACAAGTGAAGGAAGCAGCTGAAGTCTGATCCTGTGGATTCAGTCGGATCG
genomic: ATACATTGGGTTTCAACCGCTATTATAAAGAAGAGAAACAATACCAAGTGgtgagttggg ... cctttggtagGACAAGTGAAGGAAGCAGCTGAAGTCTGATCCTGTGGATTCAGTCGGATCG
EST: gi|23199461|gb|BU582026.1|BU582026
EST:     ATACATTGGGTTTCAGCCGCTATTATAAAGAAGAGAAACAATACCAAGTG                         GACAAGTGAAGGAAGCAGCTGAAGTCTGATCCTGTGGATTCAGTCGGATCG
genomic: ATACATTGGGTTTCAACCGCTATTATAAAGAAGAGAAACAATACCAAGTGgtgagttggg ... cctttggtagGACAAGTGAAGGAAGCAGCTGAAGTCTGATCCTGTGGATTCAGTCGGATCG
EST: gi|32943300|gb|CF048119.1|CF048119
EST:     ATACATTGGGTTTCAACCGCTATTATAAAGAAGAGAAACAATACCAAGTG                         GACAAGTGAAGGAAGCAGCTGAAGTCTGATCCTGTGGATTC
genomic: ATACATTGGGTTTCAACCGCTATTATAAAGAAGAGAAACAATACCAAGTGgtgagttggg ... cctttggtagGACAAGTGAAGGAAGCAGCTGAAGTCTGATCCTGTGGATTC
EST: gi|60341576|gb|DN208549.1|DN208549
EST:     ATACATTGGGTTTCAACCGCTATTATAAAGAAGAGAAACAATACCAAGTG                         GACAAGTGAAGGAAGCAGCTGAAGTCTGATCCTGTGGATTCAGTCGGATCG
genomic: ATACATTGGGTTTCAACCGCTATTATAAAGAAGAGAAACAATACCAAGTGgtgagttggg ... cctttggtagGACAAGTGAAGGAAGCAGCTGAAGTCTGATCCTGTGGATTCAGTCGGATCG
EST: gi|211354731|gb|FL460389.1|FL460389
EST:     TACATTGGGTTTCACACCGCTATTATAAAGAAGAGAAACAATACCAAGTG                         GACAAGTGAAGGAAGCAGCTGAAGTCTGATCCTGTGGATTCAGTCGGATCG
genomic: TACATTGGGTTTCA-ACCGCTATTATAAAGAAGAGAAACAATACCAAGTGgtgagttggg ... cctttggtagGACAAGTGAAGGAAGCAGCTGAAGTCTGATCCTGTGGATTCAGTCGGATCG
EST: gi|7145236|gb|AW506717.1|AW506717
EST:     ATACATTGGGTTTCAACCGCTATTATAAAGAAGAGAAACAATACCAAGTG                         GACAAGTGAAGGAAGCAGCTGAAGTCTGATCCTGTGGATTCAGTCGGATCG
genomic: ATACATTGGGTTTCAACCGCTATTATAAAGAAGAGAAACAATACCAAGTGgtgagttggg ... cctttggtagGACAAGTGAAGGAAGCAGCTGAAGTCTGATCCTGTGGATTCAGTCGGATCG
EST: gi|60340429|gb|DN207402.1|DN207402
EST:     ATACATTGGGTTTCAACCGCTATTATAAAGAAGAGAAACAATACCAAGTG                         GACAAGTGAAGGAAGCAGCTGAAGTCTGATCCTGTGGATTCAGTCGGATCG
genomic: ATACATTGGGTTTCAACCGCTATTATAAAGAAGAGAAACAATACCAAGTGgtgagttggg ... cctttggtagGACAAGTGAAGGAAGCAGCTGAAGTCTGATCCTGTGGATTCAGTCGGATCG
EST: gi|32945453|gb|CF050272.1|CF050272
EST:     ATACATTGGGTTTCAACCGCTATTATAAAGAAGAGAAACAATACCAAGTG                         T
genomic: ATACATTGGGTTTCAACCGCTATTATAAAGAAGAGAAACAATACCAAGTGgtgagttggg ... cctttggtag-
EST: gi|32945453|gb|CF050272.1|CF050272
EST:     ATACATTGGGTTTCAACCGCTATTATAAAGAAGAGAAACAATACCAAGTG                         T
genomic: ATACATTGGGTTTCAACCGCTATTATAAAGAAGAGAAACAATACCAAGTGgtgagttggg ... cctttggtag-
EST: gi|211538374|gb|FL468164.1|FL468164
EST:     ATACATTGGGTTTCAACCGCTATTATAAAGAAGAGAAACAATACCAAGTG                         GACAAGTGAAGGAAGCAGCTGAAGTCTGATCCTGTGGATTCAGTCGGATCG
genomic: ATACATTGGGTTTCAACCGCTATTATAAAGAAGAGAAACAATACCAAGTGgtgagttggg ... cctttggtagGACAAGTGAAGGAAGCAGCTGAAGTCTGATCCTGTGGATTCAGTCGGATCG
EST: gi|67018565|gb|CO447314.1|CO447314
EST:     ATACATTGGGTTTCAACCGCTATTATAAAGAAGAGAAACAATACCAAGTG                         GACAAGTGAAGGAAGCAGCTGAAGTCTGATCCTGTGGATTCAGTCGGATCG
genomic: ATACATTGGGTTTCAACCGCTATTATAAAGAAGAGAAACAATACCAAGTGgtgagttggg ... cctttggtagGACAAGTGAAGGAAGCAGCTGAAGTCTGATCCTGTGGATTCAGTCGGATCG
EST: gi|60346097|gb|DN213070.1|DN213070
EST:     ATACATTGGGTTTCAACCGCTATTATAAAGAAGAGAAACAATACCAAGTG                         GACAAGTGAAGGAAGCAGCTGAAGTCTGATCCTGTGGATTCAGTCGGATCG
genomic: ATACATTGGGTTTCAACCGCTATTATAAAGAAGAGAAACAATACCAAGTGgtgagttggg ... cctttggtagGACAAGTGAAGGAAGCAGCTGAAGTCTGATCCTGTGGATTCAGTCGGATCG
EST: gi|78085044|gb|DV513437.1|DV513437
EST:     ATACATTGGGTTTCAACCGCTATTATAAAGAAGAGAAACAATACCAAGTG                         GACAAGTGAAGGAAGCAGCTGAAGTCTGATCCTGTGGATTCAGTCGGATCG
genomic: ATACATTGGGTTTCAACCGCTATTATAAAGAAGAGAAACAATACCAAGTGgtgagttggg ... cctttggtagGACAAGTGAAGGAAGCAGCTGAAGTCTGATCCTGTGGATTCAGTCGGATCG
EST: gi|32943678|gb|CF048497.1|CF048497
EST:     ATACATTGGGTTTCAACCGCTATTATAAAGAAGAGAACCAATACCAAGTG                         GACAAGTGAAGGAAGCAGCTGAAGTCTGATCCTGTGGATTCAGTCGGATCG
genomic: ATACATTGGGTTTCAACCGCTATTATAAAGAAGAGAAACAATACCAAGTGgtgagttggg ... cctttggtagGACAAGTGAAGGAAGCAGCTGAAGTCTGATCCTGTGGATTCAGTCGGATCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tagtttttccatgtttgacacgaagtttcctaaatcacatgtttacctttggtagGACAAGTGAAGGAAGCAGCTGAAGTCTGATCCTGTGGATTCAGTCGGATCGTGGCCATGGCTTAATTTCCACCGGACATGCTGGGCTTCCACCGGACATG
                           tcctaaa  putative branch site (score: 2)
                                         tttaccttt  putative PPT
                              taaatca  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
cccaacacacaaaattggacggtggtgaaatcgggtgacaagcattagtttttccatgtttgacacgaagtttcctaaatcacatgtttacctttggtagGACAAGTGAAGGAAGCAGCTGAAGTCTGATCCTGTGGATTCAGTCGGATCGTGGCCATGGCTTAATTTCCACCGGACATGCTGGGCTTCCACCGGACATG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  ATGCTG