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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttgctcgttttctttgtttggcatgttttttcaaggactgcttccagaaattccttgtttaatgtcatccatctttttacttctcctttgaacatgcagCATCATATCAGAATCCTCAAGGGGCACAGAACGAGCATGATCCAAATAATACCACT

Basic information

species Glycine max
transcript GLYMA17G01800.1
intron # 2
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|254322516|gb|GR837930.1|GR837930
EST:     AATTGGACCAGCCTCTAATAAAAACCCTAGCACTCAGTCTCAGCCAAAAG                         CATCATATCAGAATCCTCAAGGGGCACAGAACGAGCATGATCCAAATAATA
genomic: AATTGGACCAGCCTCTAATAAAAACCCTAGCACTCAGTCTCAGCCAAAAGgtttgtttcc ... gaacatgcagCATCATATCAGAATCCTCAAGGGGCACAGAACGAGCATGATCCAAATAATA
EST: gi|151399777|gb|EV269648.1|EV269648
EST:     AATTGGACCAGCCTCTAATAAAAACCCTAGCACACAGTCTCAGCCAAAAG                         CATCATATCAGAATCCTCAAGGGGCACAGAACGAGCATGATCCAAATAATA
genomic: AATTGGACCAGCCTCTAATAAAAACCCTAGCACTCAGTCTCAGCCAAAAGgtttgtttcc ... gaacatgcagCATCATATCAGAATCCTCAAGGGGCACAGAACGAGCATGATCCAAATAATA
EST: gi|192304606|gb|FG998706.1|FG998706
EST:     AATTGGACCAGCCTCTAATAAAAACCCTAGCACTCAGTCTCAGCCAAAAG                         CATCATATCAGAATCCTCAAGGGGCACAGAACGAGCATGATCCAAATAATA
genomic: AATTGGACCAGCCTCTAATAAAAACCCTAGCACTCAGTCTCAGCCAAAAGgtttgtttcc ... gaacatgcagCATCATATCAGAATCCTCAAGGGGCACAGAACGAGCATGATCCAAATAATA
EST: gi|254329353|gb|GR833725.1|GR833725
EST:     AATTGGACCAGCCTCTAATAAAAACCCTAGCACTCAGTCTCAGCCAAAAG                         CATCATATCAGAATCCTCAAGGGGCACAGAACGAGCATGATCCAAATAATA
genomic: AATTGGACCAGCCTCTAATAAAAACCCTAGCACTCAGTCTCAGCCAAAAGgtttgtttcc ... gaacatgcagCATCATATCAGAATCCTCAAGGGGCACAGAACGAGCATGATCCAAATAATA
EST: gi|254322517|gb|GR837931.1|GR837931
EST:     CTAATAAAAACCCTAGCACTCAGTCTCAGCCAAAAG                         CATCATATCAGAATCCTCAAGGGGCACAGAACGAGCATGATCCAAATAATA
genomic: CTAATAAAAACCCTAGCACTCAGTCTCAGCCAAAAGgtttgtttcc ... gaacatgcagCATCATATCAGAATCCTCAAGGGGCACAGAACGAGCATGATCCAAATAATA
EST: gi|193473381|gb|FK437950.1|FK437950
EST:     AATTGGACCAGCCTCTAATAAAAACCCTAGCACTCAGTCTCAGCCAAAAG                         CATCATATCAGAATCCTCAAGGGG
genomic: AATTGGACCAGCCTCTAATAAAAACCCTAGCACTCAGTCTCAGCCAAAAGgtttgtttcc ... gaacatgcagCATCATATCAGAATCCTCAAGGGG
EST: gi|4395717|gb|AI494714.1|AI494714
EST:     AATTGGACCAGCCTCTAATAAAAACCCTAGCACTCAGTCTCAGCCAAAAG                         CATCATATCAGAATCCTCAAGGGGCACAGAACGAGCATGATCCAAATAATA
genomic: AATTGGACCAGCCTCTAATAAAAACCCTAGCACTCAGTCTCAGCCAAAAGgtttgtttcc ... gaacatgcagCATCATATCAGAATCCTCAAGGGGCACAGAACGAGCATGATCCAAATAATA
EST: gi|254320968|gb|GR827417.1|GR827417
EST:     AATTGGACCAGCCTCTAATAAAAACCCTAGCACTCAGTCTCAGCCAAAAG                         CATCATATCAGAATCCTCAAGGGGCACAGAACGAGCATGATCCAAATAATA
genomic: AATTGGACCAGCCTCTAATAAAAACCCTAGCACTCAGTCTCAGCCAAAAGgtttgtttcc ... gaacatgcagCATCATATCAGAATCCTCAAGGGGCACAGAACGAGCATGATCCAAATAATA
EST: gi|254320969|gb|GR827418.1|GR827418
EST:     AATTGGACCAGCCTCTAATAAAAACCCTAGCACTCAGTCTCAGCCAAAAG                         CATCATATCAGAATCCTCAAGGGGCACAGAACGAGCATGATCCAAATAATA
genomic: AATTGGACCAGCCTCTAATAAAAACCCTAGCACTCAGTCTCAGCCAAAAGgtttgtttcc ... gaacatgcagCATCATATCAGAATCCTCAAGGGGCACAGAACGAGCATGATCCAAATAATA
EST: gi|9820559|gb|BE556069.1|BE556069
EST:     AATTGGACCAGCCTCTAATAAAAACCCTAGCACTCAGTCTCAGCCAAAAG                         CATCATATCAGAATCCTCAAGGGGCACAGAACGAGCATGATCCAAATAATA
genomic: AATTGGACCAGCCTCTAATAAAAACCCTAGCACTCAGTCTCAGCCAAAAGgtttgtttcc ... gaacatgcagCATCATATCAGAATCCTCAAGGGGCACAGAACGAGCATGATCCAAATAATA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cagaaattccttgtttaatgtcatccatctttttacttctcctttgaacatgcagCATCATATCAGAATCCTCAAGGGGCACAGAACGAGCATGATCCAAATAATACCACT
            gtttaat  putative branch site (score: 4)
                       tccatctttttacttc  putative PPT
          ttgtttaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tttgctcgttttctttgtttggcatgttttttcaaggactgcttccagaaattccttgtttaatgtcatccatctttttacttctcctttgaacatgcagCATCATATCAGAATCCTCAAGGGGCACAGAACGAGCATGATCCAAATAATACCACT

- - - - - - - ttgtttg
- - - - - - - - - - -gcatgtt
- - - - - - - - - - - - - - - - - - - ctgcttc
- - - - - - - - - - - - - - - - - - - - - - - - - -ttccttg