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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtataatatgtttgtcatcagcgtgcagaagaataccttcagttcaacattcttctaggagaactcgtgtcatctccgtatattattctacaacaaatgtgagacgaatgaaaagcctaactacatattttaattcttgcagATCGTCCATCCGAATAACAAAAACATTCGAGACATTCCAGGGCTGGCCCCGCCTGCTCAAAACTATCAGATTCACAACAGGAGATTGTTGTGGGCAGAAG

Basic information

species Zea mays
transcript GRMZM2G330650_T01
intron # 9
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|60396385|gb|DN229254.1|DN229254
EST:     CATTCCTCTTCCTGATCGTTTTGGGTGTGATTGCTATCATTGTTGTCAAG                         ATCGTCCATCCGAATAACAAAAACATTCGAGACATTCCAGGGCTGGCCCCG
genomic: CATTCCTCTTCCTGATCGTTTTGGGTGTGATTGCTATCATTGTTGTCAAGgtatgtataa ... attcttgcagATCGTCCATCCGAATAACAAAAACATTCGAGACATTCCAGGGCTGGCCCCG
EST: gi|71774531|gb|DR972409.1|DR972409
EST:     CATTCCTCTTCCTGATCGTTTTGGGTGTGATTGCTATCATTGTTGTCAAG                         ATCGTCCATCCGAATAACAAAAACATTCGAGACATTCCAGGGCTGGCCCCG
genomic: CATTCCTCTTCCTGATCGTTTTGGGTGTGATTGCTATCATTGTTGTCAAGgtatgtataa ... attcttgcagATCGTCCATCCGAATAACAAAAACATTCGAGACATTCCAGGGCTGGCCCCG
EST: gi|148991480|gb|EE032993.2|EE032993
EST:     CATTCCTCTTCCTGATCGTTTTGGGTGTGATTGCTATCATTGTTGTCAAG                         ATCGTCCATCCGAATAACAAAAACATTCGAGACATTCCAGGGCTGGCCCCG
genomic: CATTCCTCTTCCTGATCGTTTTGGGTGTGATTGCTATCATTGTTGTCAAGgtatgtataa ... attcttgcagATCGTCCATCCGAATAACAAAAACATTCGAGACATTCCAGGGCTGGCCCCG
EST: gi|50338100|gb|CO533226.1|CO533226
EST:     CATTCCTCTTCCTGATCGTTTTGGGTGTGATTGCTATCATTGTTGTCAAG                         ATCGTCCATCCGAATAACAAAAACATTCGAGACATTCCAGGGCTGGCCCCG
genomic: CATTCCTCTTCCTGATCGTTTTGGGTGTGATTGCTATCATTGTTGTCAAGgtatgtataa ... attcttgcagATCGTCCATCCGAATAACAAAAACATTCGAGACATTCCAGGGCTGGCCCCG
EST: gi|76286033|gb|DV025601.1|DV025601
EST:     CATTCCTCTTCCTGATCGTTTTGGGTGTGATTGCTATCATTGTTGTCAAG                         ATCGTCCATCCGAATAACAAAAACATTCGAGACATTCCAGGGCTGGCCCCG
genomic: CATTCCTCTTCCTGATCGTTTTGGGTGTGATTGCTATCATTGTTGTCAAGgtatgtataa ... attcttgcagATCGTCCATCCGAATAACAAAAACATTCGAGACATTCCAGGGCTGGCCCCG
EST: gi|60336613|gb|DN203586.1|DN203586
EST:     CATTCCTCTTCCTGATCGTTTTGGGCGTGATTGCTATCATTGTTGTCAAG                         ATCGTCCATCCGAATAACAAAAACATTCGAGACATTCCAGGGCTGGCCCCG
genomic: CATTCCTCTTCCTGATCGTTTTGGGTGTGATTGCTATCATTGTTGTCAAGgtatgtataa ... attcttgcagATCGTCCATCCGAATAACAAAAACATTCGAGACATTCCAGGGCTGGCCCCG
EST: gi|21810005|gb|BQ668323.1|BQ668323
EST:     CATTCCTCTTTCTGATCGTTTTGGGTGTGATTGCTATCATTGTTGTTAAG                         ATCGTCCATCCGAATAACAAAAACATTCGAGACATTCCAGGGCTGGCCCCG
genomic: CATTCCTCTTCCTGATCGTTTTGGGTGTGATTGCTATCATTGTTGTCAAGgtatgtataa ... attcttgcagATCGTCCATCCGAATAACAAAAACATTCGAGACATTCCAGGGCTGGCCCCG
EST: gi|71442678|gb|DR823728.1|DR823728
EST:     CATTCCTCTTCCTGATCGTTTTGGGTGTGATTGCTATCATTGTTGTCAAG                         ATCGTCCATCCGAATAACAAAAACATTCGAGACATTCCAGGGCTGGCCCCG
genomic: CATTCCTCTTCCTGATCGTTTTGGGTGTGATTGCTATCATTGTTGTCAAGgtatgtataa ... attcttgcagATCGTCCATCCGAATAACAAAAACATTCGAGACATTCCAGGGCTGGCCCCG
EST: gi|86468475|gb|DY234845.1|DY234845
EST:     CATTCCTTTTCCTGATCGTTTTGGGTGTGATTGCTATCATTGTTGTCAAG                         ATCGTCCATCCGAATAACAAAAACATTCGAGACATTCCAGGGCTGGCCCCG
genomic: CATTCCTCTTCCTGATCGTTTTGGGTGTGATTGCTATCATTGTTGTCAAGgtatgtataa ... attcttgcagATCGTCCATCCGAATAACAAAAACATTCGAGACATTCCAGGGCTGGCCCCG
EST: gi|60396054|gb|DN228924.1|DN228924
EST:     CATTCCTCTTCCTGATCGTTTTGGGTGTGATTGCTATCATTGTTGTCAAG                         ATCGTCCATCCGAATAACAAAAACATTCGAGACATTCCAGGGCTGGCCCCG
genomic: CATTCCTCTTCCTGATCGTTTTGGGTGTGATTGCTATCATTGTTGTCAAGgtatgtataa ... attcttgcagATCGTCCATCCGAATAACAAAAACATTCGAGACATTCCAGGGCTGGCCCCG
EST: gi|211141939|gb|FL417378.1|FL417378
EST:     CATTCCTCTTCCTGATCGTTTTGGGTGTGATTGCTATCATTGTTGTCAAG                         ATCGTCCATCCGAATAACAAAAACATTCGAGACATTCCAGGGCTGGCCCCG
genomic: CATTCCTCTTCCTGATCGTTTTGGGTGTGATTGCTATCATTGTTGTCAAGgtatgtataa ... attcttgcagATCGTCCATCCGAATAACAAAAACATTCGAGACATTCCAGGGCTGGCCCCG
EST: gi|33467215|gb|CF244264.1|CF244264
EST:     CATTCCTCTTCCTGATCGTTTTGGGTGTGATTGCTATCATTGTTGTCAAG                         ATCGTCCATCCGAATAACAAAAACATTCGAGACATTCCAGGGCTGGCCCCG
genomic: CATTCCTCTTCCTGATCGTTTTGGGTGTGATTGCTATCATTGTTGTCAAGgtatgtataa ... attcttgcagATCGTCCATCCGAATAACAAAAACATTCGAGACATTCCAGGGCTGGCCCCG
EST: gi|87157738|gb|DY402527.1|DY402527
EST:     CATTCCTCTTTCTGATCGTTTTGGGTGTGATTGCTATCATTGTTGTTAAG                         ATCGTCCATCCGAATAACAAAAACATTCGAGACATTCCAGGGCTGGCCCCG
genomic: CATTCCTCTTCCTGATCGTTTTGGGTGTGATTGCTATCATTGTTGTCAAGgtatgtataa ... attcttgcagATCGTCCATCCGAATAACAAAAACATTCGAGACATTCCAGGGCTGGCCCCG
EST: gi|89754547|gb|DY685289.1|DY685289
EST:     CATTCCTCTTCCTGATCGTTTTGGGTGTGATTGCTATCATTGTTGTCAAG                         ATCGTCCATCCGAATAACAAAAACATTCGAGACATTCCAGGGCTGGCCCCG
genomic: CATTCCTCTTCCTGATCGTTTTGGGTGTGATTGCTATCATTGTTGTCAAGgtatgtataa ... attcttgcagATCGTCCATCCGAATAACAAAAACATTCGAGACATTCCAGGGCTGGCCCCG
EST: gi|7135269|gb|AW498001.1|AW498001
EST:     CATTCCTCTTTCTGATCGTTTTGGGTGTGATTGCTATCATTGTTGTTAAG                         ATCGTCCATCCGAATAACAAAAACATTCGAGACATTCCAGGGCTGGCCCCG
genomic: CATTCCTCTTCCTGATCGTTTTGGGTGTGATTGCTATCATTGTTGTCAAGgtatgtataa ... attcttgcagATCGTCCATCCGAATAACAAAAACATTCGAGACATTCCAGGGCTGGCCCCG
EST: gi|7135591|gb|AW498164.1|AW498164
EST:     CATTCCTCTTTCTGATCGTTTTGGGTGTGATTGCTATCATTGTTGTTAAG                         ATCGTCCATCCGAATAACAAAAACATTCGAGACATTCCAGGGCTGGCCCCG
genomic: CATTCCTCTTCCTGATCGTTTTGGGTGTGATTGCTATCATTGTTGTCAAGgtatgtataa ... attcttgcagATCGTCCATCCGAATAACAAAAACATTCGAGACATTCCAGGGCTGGCCCCG
EST: gi|18166041|gb|BM335880.1|BM335880
EST:     CATTCCTCTTCCTGATCGTTTTGGGTGTGATTGCTATCATTGTTGTCAAG                         ATCGTCCATCCGAATAACAAAAACATTCGAGACATTCCAGGGCTGGCCCCG
genomic: CATTCCTCTTCCTGATCGTTTTGGGTGTGATTGCTATCATTGTTGTCAAGgtatgtataa ... attcttgcagATCGTCCATCCGAATAACAAAAACATTCGAGACATTCCAGGGCTGGCCCCG
EST: gi|78074383|gb|DV502817.1|DV502817
EST:     CATTCCTCTTCCTGATCGTTTTGGGTGTGATTGCTATCATTGTTGTCAAG                         ATCGTCCATCCGAATAACAAAAACATTCGAGACATTCCAGGGCTGGCCCCG
genomic: CATTCCTCTTCCTGATCGTTTTGGGTGTGATTGCTATCATTGTTGTCAAGgtatgtataa ... attcttgcagATCGTCCATCCGAATAACAAAAACATTCGAGACATTCCAGGGCTGGCCCCG
EST: gi|86468443|gb|DY234813.1|DY234813
EST:     CATTCCTTTTCCTGATCGTTTTGGGTGTGATTGCTATCATTGTTGTCAAG                         ATCGTCCATCCGAATAACAAAAACATTCGAGACATTCCAGGGCTGGCCCCG
genomic: CATTCCTCTTCCTGATCGTTTTGGGTGTGATTGCTATCATTGTTGTCAAGgtatgtataa ... attcttgcagATCGTCCATCCGAATAACAAAAACATTCGAGACATTCCAGGGCTGGCCCCG
EST: gi|78122352|gb|DV540736.1|DV540736
EST:     CATTCCTCTTCCTGATCGTTTTGGGTGTGATTGCTATCATTGTTGTCAAG                         ATCGTCCATCCGAATAACAAAAACATTCGAGACATTCCAGGGCTGGCCCCG
genomic: CATTCCTCTTCCTGATCGTTTTGGGTGTGATTGCTATCATTGTTGTCAAGgtatgtataa ... attcttgcagATCGTCCATCCGAATAACAAAAACATTCGAGACATTCCAGGGCTGGCCCCG
EST: gi|71306394|gb|DR789339.1|DR789339
EST:     CATTCCTCTTCCTGATCGTTTTGGGTGTGATTGCTATCATTGTTGTCAAG                         ATCGTCCATCCGAATAACAAAAACATTCGAGACATTCCAGGGCTGGCCCCG
genomic: CATTCCTCTTCCTGATCGTTTTGGGTGTGATTGCTATCATTGTTGTCAAGgtatgtataa ... attcttgcagATCGTCCATCCGAATAACAAAAACATTCGAGACATTCCAGGGCTGGCCCCG
EST: gi|71329982|gb|DR801727.1|DR801727
EST:     TCCCTTCTTCCTGATCGTTTTTGGGTGTGATTGCTATCATTGTTGTCAAG                         ATCGTCCATCCGAATAACAAAAACATTCGAGACATTCCAGGGCTGGCCCCG
genomic: TCC-T-CTTCCTGATCGTTTT-GGGTGTGATTGCTATCATTGTTGTCAAGgtatgtataa ... attcttgcagATCGTCCATCCGAATAACAAAAACATTCGAGACATTCCAGGGCTGGCCCCG
EST: gi|60337886|gb|DN204859.1|DN204859
EST:     CATTCCTCTTCCTGATCGTTTTGGGTGTGATTGCTATCATTGTTGTCAAG                         ATCGTCCATCCGAATAACAAAAACATTCGAGACATTCCAGGGCTGGCCCCG
genomic: CATTCCTCTTCCTGATCGTTTTGGGTGTGATTGCTATCATTGTTGTCAAGgtatgtataa ... attcttgcagATCGTCCATCCGAATAACAAAAACATTCGAGACATTCCAGGGCTGGCCCCG
EST: gi|110510919|gb|EE019261.1|EE019261
EST:     CATTCCTCTTCCTGATCGTTTTGGGTGTGATTGCTATCATTGTTGTCAAG                         ATCGTCCATCCGAATAACAAAAACATTCGAGACATTCCAGGGCTGGCCCCG
genomic: CATTCCTCTTCCTGATCGTTTTGGGTGTGATTGCTATCATTGTTGTCAAGgtatgtataa ... attcttgcagATCGTCCATCCGAATAACAAAAACATTCGAGACATTCCAGGGCTGGCCCCG
EST: gi|76019098|gb|DT946268.1|DT946268
EST:     CATTCCTCTTCCTGATCGTTTTGGGTGTGATTGCTATCATTGTTGTCAAG                         ATCGTCCATCCGAATAACAAAAACATTCGAGACATTCCAGGGCTGGCCCCG
genomic: CATTCCTCTTCCTGATCGTTTTGGGTGTGATTGCTATCATTGTTGTCAAGgtatgtataa ... attcttgcagATCGTCCATCCGAATAACAAAAACATTCGAGACATTCCAGGGCTGGCCCCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctacaacaaatgtgagacgaatgaaaagcctaactacatattttaattcttgcagATCGTCCATCCGAATAACAAAAACATTCGAGACATTCCAGGGCTGGCCCCGCCTGCTCAAAACTATCAGATTCACAACAGGAGATTGTTGTGGGCAGAAG
                                              ttcttgc  CT-rich tract
                              taactacatattttaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgtataatatgtttgtcatcagcgtgcagaagaataccttcagttcaacattcttctaggagaactcgtgtcatctccgtatattattctacaacaaatgtgagacgaatgaaaagcctaactacatattttaattcttgcagATCGTCCATCCGAATAACAAAAACATTCGAGACATTCCAGGGCTGGCCCCGCCTGCTCAAAACTATCAGATTCACAACAGGAGATTGTTGTGGGCAGAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAT