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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatataacagaaaaacgtaattcatttgaacctggagaggattactgatctcctaattaaaactgcaacaaggcaagcaaggctgaaatgtgtgtggcattttcgttcctaatctttgccagAACTTGTGGACTTCTTCTTTGTCGACACCACTCCGTTCCAACTGGAGTATTGGACTCACCCTGGCAAGCATCGTTATGACTGGAGAGGGGTGGCGCCTCG

Basic information

species Zea mays
transcript GRMZM2G152447_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|78088303|gb|DV516696.1|DV516696
EST:     GAAGATCGACGACCGATTCATTTGCATGAGATCGTTCATCGTTAACGCAG                         AACTTGTGGACTTCTTCTTTGTCGACACCACTCCGTTCCAACTGGAGTATT
genomic: GAAGATCGACGACCGATTCATTTGCATGAGATCGTTCATCGTTAACGCAGgtatataaca ... tctttgccagAACTTGTGGACTTCTTCTTTGTCGACACCACTCCGTTCCAACTGGAGTATT
EST: gi|50328960|gb|CO524086.1|CO524086
EST:     ACCGATTCATTTGCATGAGATCGTTCATCGTTAACGCAG                         AACTTGTGGACTTCTTCTTTGTCGACACCACTCCGTTCCAACTGGAGTATT
genomic: ACCGATTCATTTGCATGAGATCGTTCATCGTTAACGCAGgtatataaca ... tctttgccagAACTTGTGGACTTCTTCTTTGTCGACACCACTCCGTTCCAACTGGAGTATT
EST: gi|211512568|gb|FL110029.1|FL110029
EST:     GAAGATCGACGACCGATTCATTTGCATGAGATCGTTCATCGTTAACGCAG                         AACTTGTGGACTTCTTCTTTGTCGACACCACTCCGTTCCAACTGGAGTATT
genomic: GAAGATCGACGACCGATTCATTTGCATGAGATCGTTCATCGTTAACGCAGgtatataaca ... tctttgccagAACTTGTGGACTTCTTCTTTGTCGACACCACTCCGTTCCAACTGGAGTATT
EST: gi|71436322|gb|DR817372.1|DR817372
EST:     ATTCATTTGCATGAGATTGTTCTATCGTTAACGCAG                         AACTTGTGGACTTCTTCTTTGTCGACACCACTCCGTTCCAACTGGAGTATT
genomic: ATTCATTTGCATGAGATCGTTC-ATCGTTAACGCAGgtatataaca ... tctttgccagAACTTGTGGACTTCTTCTTTGTCGACACCACTCCGTTCCAACTGGAGTATT
EST: gi|18169298|gb|BM339138.1|BM339138
EST:     GACGACCGATTCATTTGCATGAGATCGTTCATCGTTAACGCAG                         AACTTGTGGACTTCTTCTTTGTCGACACCACTCCGTTCCAACTGGAGTATT
genomic: GACGACCGATTCATTTGCATGAGATCGTTCATCGTTAACGCAGgtatataaca ... tctttgccagAACTTGTGGACTTCTTCTTTGTCGACACCACTCCGTTCCAACTGGAGTATT
EST: gi|24934165|gb|CA452383.1|CA452383
EST:     GAAGATCGACGACCGATTCATTTGCATGAGATCGTTCATCGTTAACGCAG                         AACTTGTGGACTTCTTCTTTGTCGACACCACTCCGTTCCAACTGGAGTATT
genomic: GAAGATCGACGACCGATTCATTTGCATGAGATCGTTCATCGTTAACGCAGgtatataaca ... tctttgccagAACTTGTGGACTTCTTCTTTGTCGACACCACTCCGTTCCAACTGGAGTATT
EST: gi|149107456|gb|EE189334.2|EE189334
EST:     GAAGATCGACGACCGATTCATTTGCATGAGATCGTTCATCGTTAACGCAG                         AACTTGTGGACTTCTTCTTTGTCGACACCACTCCGTTCCAACTGGAGTATT
genomic: GAAGATCGACGACCGATTCATTTGCATGAGATCGTTCATCGTTAACGCAGgtatataaca ... tctttgccagAACTTGTGGACTTCTTCTTTGTCGACACCACTCCGTTCCAACTGGAGTATT
EST: gi|78110600|gb|DV529008.1|DV529008
EST:     GAAGATCGACGACCGATTCATTTGCATGAGATCGTTCATCGTTAACGCAG                         AACTTGTGGACTTCTTCTTTGTCGACACCACTCCGTTCCAACTGGAGTATT
genomic: GAAGATCGACGACCGATTCATTTGCATGAGATCGTTCATCGTTAACGCAGgtatataaca ... tctttgccagAACTTGTGGACTTCTTCTTTGTCGACACCACTCCGTTCCAACTGGAGTATT
EST: gi|91055272|gb|EB165690.1|EB165690
EST:     GAAGATCGACGACCGATTCATTTGCATGAGATCGTTCATCGTTAACGCAG                         AACTTGTGGACTTCTTCTTTGTCGACACCACTCCGTTCCAACTGGAGTATT
genomic: GAAGATCGACGACCGATTCATTTGCATGAGATCGTTCATCGTTAACGCAGgtatataaca ... tctttgccagAACTTGTGGACTTCTTCTTTGTCGACACCACTCCGTTCCAACTGGAGTATT
EST: gi|91876187|gb|EB406144.1|EB406144
EST:     GAAGATCGACGACCGATTCATTTGCATGAGATCGTTCATCGTTAACGCAG                         AACTTGTGGACTTCTTCTTTGTCGACACCACTCCGTTCCAACTGGAGTATT
genomic: GAAGATCGACGACCGATTCATTTGCATGAGATCGTTCATCGTTAACGCAGgtatataaca ... tctttgccagAACTTGTGGACTTCTTCTTTGTCGACACCACTCCGTTCCAACTGGAGTATT
EST: gi|78109968|gb|DV528383.1|DV528383
EST:     GAAGATCGACGACCGATTCATTTGCATGAGATCGTTCATCGTTAACGCAG                         AACTTGTGGACTTCTTCTTTGTCGACACCACTCCGTTCCAACTGGAGTATT
genomic: GAAGATCGACGACCGATTCATTTGCATGAGATCGTTCATCGTTAACGCAGgtatataaca ... tctttgccagAACTTGTGGACTTCTTCTTTGTCGACACCACTCCGTTCCAACTGGAGTATT
EST: gi|78109969|gb|DV528384.1|DV528384
EST:     GAAGATCGACGACCGATTCATTTGCATGAGATCGTTCATCGTTAACGCAG                         AACTTGTGGACTTCTTCTTTGTCGACACCACTCCGTTCCAACTGGAGTATT
genomic: GAAGATCGACGACCGATTCATTTGCATGAGATCGTTCATCGTTAACGCAGgtatataaca ... tctttgccagAACTTGTGGACTTCTTCTTTGTCGACACCACTCCGTTCCAACTGGAGTATT
EST: gi|78086366|gb|DV514759.1|DV514759
EST:     GAAGATCGACGACCGATTCATTTGCATGAGATCGTTCATCGTTAACGCAG                         AACTTGTGGACTTCTTCTTTGTCGACACCACTCCGTTCCAACTGGAGTATT
genomic: GAAGATCGACGACCGATTCATTTGCATGAGATCGTTCATCGTTAACGCAGgtatataaca ... tctttgccagAACTTGTGGACTTCTTCTTTGTCGACACCACTCCGTTCCAACTGGAGTATT
EST: gi|148986503|gb|EE030253.2|EE030253
EST:     GAAGATCGACGACCGATTCATTTGCATGAGATCGTTCATCGTTAACGCAG                         AACTTGTGGACTTCTTCTTTGTCGACACCACTCCGTTCCAACTGGAGTATT
genomic: GAAGATCGACGACCGATTCATTTGCATGAGATCGTTCATCGTTAACGCAGgtatataaca ... tctttgccagAACTTGTGGACTTCTTCTTTGTCGACACCACTCCGTTCCAACTGGAGTATT
EST: gi|76288593|gb|DV028161.1|DV028161
EST:     GAAGATCGACGACCGATTCATTTGCATGAGATCGTTCATCGTTAACGCAG                         AACTTGTGGACTTCTTCTTTGTCGACACCACTCCGTTCCAACTGGAGTATT
genomic: GAAGATCGACGACCGATTCATTTGCATGAGATCGTTCATCGTTAACGCAGgtatataaca ... tctttgccagAACTTGTGGACTTCTTCTTTGTCGACACCACTCCGTTCCAACTGGAGTATT
EST: gi|91872645|gb|EB402602.1|EB402602
EST:     GAAGATCGACGACCGATTCATTTGCATGAGATCGTTCATCGTTAACGCAG                         AACTTGTGGACTTCTTCTTTGTCGACACCACTCCGTTCCAACTGGAGTATT
genomic: GAAGATCGACGACCGATTCATTTGCATGAGATCGTTCATCGTTAACGCAGgtatataaca ... tctttgccagAACTTGTGGACTTCTTCTTTGTCGACACCACTCCGTTCCAACTGGAGTATT
EST: gi|211512569|gb|FL110030.1|FL110030
EST:     GAAGATCGACGACCGATTCATTTGCATGAGATCGTTCATCGTTAACGCAG                         AACTTGTGGACTTCTTCTTTGTCGACACCACTCCGTTCCAACTGGAGTATT
genomic: GAAGATCGACGACCGATTCATTTGCATGAGATCGTTCATCGTTAACGCAGgtatataaca ... tctttgccagAACTTGTGGACTTCTTCTTTGTCGACACCACTCCGTTCCAACTGGAGTATT
EST: gi|91054359|gb|EB164777.1|EB164777
EST:     GAAGATCGACGACCGATTCATTTGCATGAGATCGTTCATCGTTAACGCAG                         AACTTGTGGACTTCTTCTTTGTCGACACCACTCCGTTCCAACTGGAGTATT
genomic: GAAGATCGACGACCGATTCATTTGCATGAGATCGTTCATCGTTAACGCAGgtatataaca ... tctttgccagAACTTGTGGACTTCTTCTTTGTCGACACCACTCCGTTCCAACTGGAGTATT
EST: gi|78110599|gb|DV529007.1|DV529007
EST:     GAAGATCGACGACCGATTCATTTGCATGAGATCGTTCATCGTTAACGCAG                         AACTTGTGGACTTCTTCTTTGTCGACACCACTCCGTTCCAACTGGAGTATT
genomic: GAAGATCGACGACCGATTCATTTGCATGAGATCGTTCATCGTTAACGCAGgtatataaca ... tctttgccagAACTTGTGGACTTCTTCTTTGTCGACACCACTCCGTTCCAACTGGAGTATT
EST: gi|71312265|gb|DR792656.1|DR792656
EST:     GAAGATCGACGACCGATTCATTTGCATGAGATCGTTCATCGTTAACGCAG                         AACTTGTGGACTTCTTCTTTGTCGACACCACTCCGTTCCAACTGGAGTATT
genomic: GAAGATCGACGACCGATTCATTTGCATGAGATCGTTCATCGTTAACGCAGgtatataaca ... tctttgccagAACTTGTGGACTTCTTCTTTGTCGACACCACTCCGTTCCAACTGGAGTATT
EST: gi|101394597|gb|EB819233.1|EB819233
EST:     CGACCGATTCATTTGCATGAGATCGTTCATCGTTAACGCAG                         AACTTGTGGACTTCTTCTTTGTCGACACCACTCCGTTCCAACTGGAGTATT
genomic: CGACCGATTCATTTGCATGAGATCGTTCATCGTTAACGCAGgtatataaca ... tctttgccagAACTTGTGGACTTCTTCTTTGTCGACACCACTCCGTTCCAACTGGAGTATT
EST: gi|56461959|gb|CK986257.1|CK986257
EST:     GAGGATCGACGACCGATTCATTTGCATGAGATCGTTCATCGTTAACGCAG                         AACTTGTGGACTTCTTCTTTGTCGACACCACTCCGTTCCAACTGGAGTATT
genomic: GAAGATCGACGACCGATTCATTTGCATGAGATCGTTCATCGTTAACGCAGgtatataaca ... tctttgccagAACTTGTGGACTTCTTCTTTGTCGACACCACTCCGTTCCAACTGGAGTATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acaaggcaagcaaggctgaaatgtgtgtggcattttcgttcctaatctttgccagAACTTGTGGACTTCTTCTTTGTCGACACCACTCCGTTCCAACTGGAGTATTGGACTCACCCTGGCAAGCATCGTTATGACTGGAGAGGGGTGGCGCCTCG
                                       tcctaat  putative branch site (score: 2)
                                             tctttgcc  CT-rich tract
                                          taatcttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatataacagaaaaacgtaattcatttgaacctggagaggattactgatctcctaattaaaactgcaacaaggcaagcaaggctgaaatgtgtgtggcattttcgttcctaatctttgccagAACTTGTGGACTTCTTCTTTGTCGACACCACTCCGTTCCAACTGGAGTATTGGACTCACCCTGGCAAGCATCGTTATGACTGGAGAGGGGTGGCGCCTCG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGAGG