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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtgtgccttatgttacttgtaccctgtaggttgtagctttgctgtactgtaccgtgttttttttggcattttatctgacatgttagttgttttcatgcagGATCTTCCAGGTGCACTCGATGATGCTGCCATTACAGAGTCATTAGAACTACACAAAATTAAGAGCCGCCAATGGGCGATTTTCAAAACATCTGCAATAA

Basic information

species Zea mays
transcript GRMZM2G147726_T03
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G147726_T01 (Zea mays), 3'ss of exon 11
lower sequence: LOC_Os08g15040.2 (Oryza sativa), 3'ss of exon 6
gtgtgccttatgttactt-gtaccctgtaggttgtagctttgctgtactgtaccgtgttttttttggcattttatctgacatgttagttgttttca-tgcagGATCTTCCAGGTGCACTCGATGATGCTGCCATTACAGAGTCATTAGAACTACACAAAATTAAGAGCCGCCAATGGGCGATTTTCAAAACATCTGCAATAA
   |    |||   | |  ||      |   || |    | ||   | ||||    |     | ||   | | || ||   |  |   |    | | |||||||||||||||||||||| |||||||||||||| || || ||||||||||| ||||| ||||||||||| |||||||||||||||||||||||||| ||||
-cattttctatacaaataagttggagatgctttattctatggcaacaatgtag-acgcccaatatgatgtctcatgtgctgtcatgcctacaatgaatgcagGATCTTCCAGGTGCACTTGATGATGCTGCCATAACGGAATCATTAGAACTCCACAAGATTAAGAGCCGTCAATGGGCGATTTTCAAAACATCTGCCATAA

upper sequence: GRMZM2G147726_T01 (Zea mays), 3'ss of exon 11
lower sequence: Vv11s0052g01720.t01 (Vitis vinifera), 3'ss of exon 7
gtgtgccttatgttacttgtaccctgtaggttgtagctttgctgtactgtac-cgtgttttttttggcattttatctgacatgttagttgtt--ttcatgcagGATCTTCCAGGTGCACTCGATGATGCTGCCATTACAGAGTCATTAGAACTACACAAAATTAAGAGCCGCCAATGGGCGATTTTCAAAACATCTGCAATAA
    || | ||  |   || ||  | |  |    |      ||||    |    ||||||  ||     |||| |||  |   ||  |   |  |  ||  |||||||||| |||||||| |||||||||||  | || ||| | |||||  | ||||| ||||| | ||| |||||||| ||||| ||||| ||||| ||||
---agcttcatcctctatgaactttctgcgcataaatccatctgtgaaatttgtgtgtttagttgattgttttttctttctcttttttccctgttctatatagGATCTTCCTGGTGCACTTGATGATGCTGCTGTGACTGAGGCCTTAGAGTTGCACAAGATTAAAAACCGTCAATGGGCAATTTTTAAAACTTCTGCCATAA
















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|211217104|gb|FL383487.1|FL383487
EST:     GAGGATGAACTTAAAGGTGCAGTTGTCCTTGTGTATGCAAATAAGCAG                         G-T------G---CACTCGATGATGCTGCCATTACAGAGTCATTAGAACTA
genomic: GAGGATGAACTTAAAGGTGCAGTTGTCCTTGTGTATGCAAATAAGCAGgtaaaaagaa ... tttcatgcagGATCTTCCAGGTGCACTCGATGATGCTGCCATTACAGAGTCATTAGAACTA
EST: gi|18181584|gb|BM382794.1|BM382794
EST:     GAGGATGAACTTAAAGGTGCAGTTGTCCTTGTGTATGCAAATAAGCAG                         GATCTTCCAGGTGCACTCGATGATGCTGCCATTACAGAGTCATTAGAACTA
genomic: GAGGATGAACTTAAAGGTGCAGTTGTCCTTGTGTATGCAAATAAGCAGgtaaaaagaa ... tttcatgcagGATCTTCCAGGTGCACTCGATGATGCTGCCATTACAGAGTCATTAGAACTA
EST: gi|60396369|gb|DN229238.1|DN229238
EST:     GAGGATGAACTTAAAGGTGCAGTTGTCCTTGTGTATGCAAATAAGCAG                         GATCTTCCAGGTGCACTCGATGATGCTGCCATTACAGAGTCATTAGAACTA
genomic: GAGGATGAACTTAAAGGTGCAGTTGTCCTTGTGTATGCAAATAAGCAGgtaaaaagaa ... tttcatgcagGATCTTCCAGGTGCACTCGATGATGCTGCCATTACAGAGTCATTAGAACTA
EST: gi|32945768|gb|CF050587.1|CF050587
EST:     GAGGATGAACTTAAAGGTGCAGTTGTCCTTGTGTATGCAAATAAGCAG                         GATCTTCCAGGTGCACTCGATGATGCTGCCATTACAGAGTCATTAGAACTA
genomic: GAGGATGAACTTAAAGGTGCAGTTGTCCTTGTGTATGCAAATAAGCAGgtaaaaagaa ... tttcatgcagGATCTTCCAGGTGCACTCGATGATGCTGCCATTACAGAGTCATTAGAACTA
EST: gi|5456152|gb|AI833842.1|AI833842
EST:     GAGGATGAACTTAAAGGTGCAGTTGTCCTTGTGTATGCAAATAAGCAG                         GATCTTCCAGGTGCACTCGATGATGCTGCCATTACAGAGTCATTAGAACTA
genomic: GAGGATGAACTTAAAGGTGCAGTTGTCCTTGTGTATGCAAATAAGCAGgtaaaaagaa ... tttcatgcagGATCTTCCAGGTGCACTCGATGATGCTGCCATTACAGAGTCATTAGAACTA
EST: gi|211104194|gb|FL471169.1|FL471169
EST:     GAGGATGAACTTAAAGGTGCAGTTGTCCTTGTGTATGCAAATAAGCAG                         GATCTTCCAGGTGCACTCGATGATGCTGCCATTACAGAGTCATTAGAACTA
genomic: GAGGATGAACTTAAAGGTGCAGTTGTCCTTGTGTATGCAAATAAGCAGgtaaaaagaa ... tttcatgcagGATCTTCCAGGTGCACTCGATGATGCTGCCATTACAGAGTCATTAGAACTA
EST: gi|31611779|gb|CD568401.1|CD568401
EST:     GAGGATGAACTTAAAGGTGCAGTTGTCCTTGTGTATGCTAATAAGCAG                         GATCTTCCAGGTGCACTCGATGATGCTGCCATTACAGAGTCATTAGAACTA
genomic: GAGGATGAACTTAAAGGTGCAGTTGTCCTTGTGTATGCAAATAAGCAGgtaaaaagaa ... tttcatgcagGATCTTCCAGGTGCACTCGATGATGCTGCCATTACAGAGTCATTAGAACTA
EST: gi|149086485|gb|EE176030.2|EE176030
EST:     TGCAAATAAGCAG                         GATCTTCCAGGTGCACTCGATGATGCTGCCATTACAGAGTCATTAGAACTA
genomic: TGCAAATAAGCAGgtaaaaagaa ... tttcatgcagGATCTTCCAGGTGCACTCGATGATGCTGCCATTACAGAGTCATTAGAACTA
EST: gi|60346093|gb|DN213066.1|DN213066
EST:     GAGGATGAACTTAAAGGTGCAGTTGTCCTTGTGTATGCAAATAAGCAG                         GATCTTCCAGGTGCACTCGATGATGCTGCCATTACAGAGTCATTAGAACTA
genomic: GAGGATGAACTTAAAGGTGCAGTTGTCCTTGTGTATGCAAATAAGCAGgtaaaaagaa ... tttcatgcagGATCTTCCAGGTGCACTCGATGATGCTGCCATTACAGAGTCATTAGAACTA
EST: gi|29946538|gb|CB816199.1|CB816199
EST:     GAGGATGAACTTAAAGGTGCAGTTGTCCTTGTGTATGCAAATAAGCAG                         GATCTTCCAGGTGCACTCGATGATGCTGCCATTACAGAGTCATTAGAACTA
genomic: GAGGATGAACTTAAAGGTGCAGTTGTCCTTGTGTATGCAAATAAGCAGgtaaaaagaa ... tttcatgcagGATCTTCCAGGTGCACTCGATGATGCTGCCATTACAGAGTCATTAGAACTA
EST: gi|6994080|gb|AW453294.1|AW453294
EST:     GAGGATGAACTTAAAGGTGCAGTTGTCCTTGTGTATGCAAATAAGCAG                         GATCTTCCAGGTGCACTCGATGATGCTGCCATTACAGAGTCATTAGAACTA
genomic: GAGGATGAACTTAAAGGTGCAGTTGTCCTTGTGTATGCAAATAAGCAGgtaaaaagaa ... tttcatgcagGATCTTCCAGGTGCACTCGATGATGCTGCCATTACAGAGTCATTAGAACTA
EST: gi|44901570|gb|CK828115.1|CK828115
EST:     CTTAAAGGTGCAGTTGTCCTTGTGTATGCAAATAAGCAG                         GATCTTCCAGGTGCACTCGATGATGCTGCCATTACAGAGTCATTAGAACTA
genomic: CTTAAAGGTGCAGTTGTCCTTGTGTATGCAAATAAGCAGgtaaaaagaa ... tttcatgcagGATCTTCCAGGTGCACTCGATGATGCTGCCATTACAGAGTCATTAGAACTA
EST: gi|71426509|gb|DR807559.1|DR807559
EST:     GAGGATGAACTTAAAGGTGCAGTTGTCCTTGTGTATGCAAGTAAGCAG                         GATCTTCCAGGTGCACTCGATGATGCTGCCATTACAGAGTCATTAGAACTA
genomic: GAGGATGAACTTAAAGGTGCAGTTGTCCTTGTGTATGCAAATAAGCAGgtaaaaagaa ... tttcatgcagGATCTTCCAGGTGCACTCGATGATGCTGCCATTACAGAGTCATTAGAACTA
EST: gi|14203130|gb|BG836807.1|BG836807
EST:     GAGGATGAACTTAAAGGTGCAGTTGTCCTTGTGTATGCAAATAAGCAG                         GATCTTCCAGGTGCACTCGATGATG-TGCCATTACAGAGTCATTAGAACTA
genomic: GAGGATGAACTTAAAGGTGCAGTTGTCCTTGTGTATGCAAATAAGCAGgtaaaaagaa ... tttcatgcagGATCTTCCAGGTGCACTCGATGATGCTGCCATTACAGAGTCATTAGAACTA
EST: gi|211068733|gb|FL060710.1|FL060710
EST:     GAGGATGAACTTAAAGGTGGAGTTGTCCTTGTGTATGCAAATAAGCAG                         GATCTTCCAGGTGCACTCGATGATGCTGCCATTACAGAGTCATTAGAACTA
genomic: GAGGATGAACTTAAAGGTGCAGTTGTCCTTGTGTATGCAAATAAGCAGgtaaaaagaa ... tttcatgcagGATCTTCCAGGTGCACTCGATGATGCTGCCATTACAGAGTCATTAGAACTA
EST: gi|60399097|gb|DN231911.1|DN231911
EST:     GAGGATGAACTTAAAGGTGCAGTTGTCCTTGTGTATGCAAATAAGCAG                         GATCTTCCAGGTGCACTCGATGATGCTGCCATTACAGAGTCATTAGAACTA
genomic: GAGGATGAACTTAAAGGTGCAGTTGTCCTTGTGTATGCAAATAAGCAGgtaaaaagaa ... tttcatgcagGATCTTCCAGGTGCACTCGATGATGCTGCCATTACAGAGTCATTAGAACTA
EST: gi|32906937|gb|CF011750.1|CF011750
EST:     GAGGATGAACTTAAAGGTGCAGTTGTCCTCGTGTATGCAAATAAGCAG                         GATCTTCCAGGTGCACTCGATGATGCTGCCATTACAGAGTCATTAGAACTA
genomic: GAGGATGAACTTAAAGGTGCAGTTGTCCTTGTGTATGCAAATAAGCAGgtaaaaagaa ... tttcatgcagGATCTTCCAGGTGCACTCGATGATGCTGCCATTACAGAGTCATTAGAACTA
EST: gi|211301270|gb|FL181609.1|FL181609
EST:     GAGGATGAACTTAAAGGTGCAGTTGTCCTTGTGTATGCAAATAAGCAG                         GATCTTCCAGGTGCACTCGATGATGCTGCCATTACAGAGTCATTAGAACTA
genomic: GAGGATGAACTTAAAGGTGCAGTTGTCCTTGTGTATGCAAATAAGCAGgtaaaaagaa ... tttcatgcagGATCTTCCAGGTGCACTCGATGATGCTGCCATTACAGAGTCATTAGAACTA
EST: gi|71775316|gb|DR973194.1|DR973194
EST:     GAGGATGAACTTAAAGGTGCAGTTGTCCTTGTGTATGCAAATAAGCAG                         GATCTTCCAGGTGCACTCGATGATGCTGCCATTACAGAGTCATTAGAACTA
genomic: GAGGATGAACTTAAAGGTGCAGTTGTCCTTGTGTATGCAAATAAGCAGgtaaaaagaa ... tttcatgcagGATCTTCCAGGTGCACTCGATGATGCTGCCATTACAGAGTCATTAGAACTA
EST: gi|29544164|gb|CB604544.1|CB604544
EST:     GAGGATGAACTTAAAGGTGCAGTTGTCCTTGTGTATGCAAATAAGCAG                         GATCTTCCAGGTGCCCTCGATGATGCTGCCATTACAGAGTCATTAGAACTA
genomic: GAGGATGAACTTAAAGGTGCAGTTGTCCTTGTGTATGCAAATAAGCAGgtaaaaagaa ... tttcatgcagGATCTTCCAGGTGCACTCGATGATGCTGCCATTACAGAGTCATTAGAACTA
EST: gi|78110076|gb|DV528491.1|DV528491
EST:     GAGGATGAACTTAAAGGTGCAGTTGTCCTTGTGTATGCAAATAAGCAG                         GATCTTCCAGGTGCACTCGATGATGCTGCCATTACAGAGTCATTAGAACTA
genomic: GAGGATGAACTTAAAGGTGCAGTTGTCCTTGTGTATGCAAATAAGCAGgtaaaaagaa ... tttcatgcagGATCTTCCAGGTGCACTCGATGATGCTGCCATTACAGAGTCATTAGAACTA
EST: gi|18175608|gb|BM350861.1|BM350861
EST:     GAGGATGAACTTAAAGGTGCAGTTGTCCTTGTGTATGCAAATAAGCAG                         GATCTTCCAGGTGCACTCGATGATGCTGCCATTACAGAGTCATTAGAACTA
genomic: GAGGATGAACTTAAAGGTGCAGTTGTCCTTGTGTATGCAAATAAGCAGgtaaaaagaa ... tttcatgcagGATCTTCCAGGTGCACTCGATGATGCTGCCATTACAGAGTCATTAGAACTA
EST: gi|21809994|gb|BQ668312.1|BQ668312
EST:     GAGGATGAACTTAAAGGTGCAGTTGTCCTTGTGTATGCAAATAAGCAG                         GATCTTCCAGGTGCACTCGATGATGCTGCCATTACAGAGTCATTAGAACTA
genomic: GAGGATGAACTTAAAGGTGCAGTTGTCCTTGTGTATGCAAATAAGCAGgtaaaaagaa ... tttcatgcagGATCTTCCAGGTGCACTCGATGATGCTGCCATTACAGAGTCATTAGAACTA
EST: gi|33092385|gb|CF052379.1|CF052379
EST:     GAGGATGAACTTAAAGGTGCAGTTGTCCTTGTGTATGCAAATAAGCAG                         GATCTTCCAGGTGCACTCGATGATGCTGCCATTACAGAGTCATTAGAACTA
genomic: GAGGATGAACTTAAAGGTGCAGTTGTCCTTGTGTATGCAAATAAGCAGgtaaaaagaa ... tttcatgcagGATCTTCCAGGTGCACTCGATGATGCTGCCATTACAGAGTCATTAGAACTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actgtaccgtgttttttttggcattttatctgacatgttagttgttttcatgcagGATCTTCCAGGTGCACTCGATGATGCTGCCATTACAGAGTCATTAGAACTACACAAAATTAAGAGCCGCCAATGGGCGATTTTCAAAACATCTGCAATAA
                           atctgac  putative branch site (score: 3)
                                         ttgttttc  putative PPT
         tgtttttttt  TA-rich tract