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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgtaccaacgcaacgcaacgctacgctacgctacgctagcccctccaattttcaatttcactttccgattttatttgattggtttcgattttttttttcttcttttttcttttttacagTCTCTGACCCGAAGAGCGAACCATAATGGAAGAGTAAATTACCGGAAACCGAATAACCGTTTCTCCGTGAAAGCCTCCGCCAAAGAGATTGCCTTTGACC

Basic information

species Glycine max
transcript GLYMA12G08310.1
intron # 1
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|15286372|gb|BI470263.1|BI470263
EST:     CAACCAACGCTCTCTCTTCAGCCTCCATTCTACGCTCTCCCAACCGCCAG                         TCTCTGACCCGAAGAGCGAACCATAATGGAAGAGTAAATTACCGGAAACCG
genomic: CAACCAACGCTCTCTCTTCAGCCTCCATTCTACGCTCTCCCAACCGCCAGgtacgtacca ... ttttttacagTCTCTGACCCGAAGAGCGAACCATAATGGAAGAGTAAATTACCGGAAACCG
EST: gi|213611560|gb|DB960840.1|DB960840
EST:     CAACCAACGCTCTCTCTTCAGCCTCCATTCTACGCTCTCCCAACCGCCAG                         TCTCTGACCCGAAGAGCGAACCATAATGGAAGAGTAAATTACCGGAAACCG
genomic: CAACCAACGCTCTCTCTTCAGCCTCCATTCTACGCTCTCCCAACCGCCAGgtacgtacca ... ttttttacagTCTCTGACCCGAAGAGCGAACCATAATGGAAGAGTAAATTACCGGAAACCG
EST: gi|213590324|gb|DB970122.1|DB970122
EST:     CAACCAACGCTCTCTCTTCAGCCTCCATTCTACGCTCTCCCAACCGCCAG                         TCTCTGACCCGAAGAGCGAACCATAATGGAAG
genomic: CAACCAACGCTCTCTCTTCAGCCTCCATTCTACGCTCTCCCAACCGCCAGgtacgtacca ... ttttttacagTCTCTGACCCGAAGAGCGAACCATAATGGAAG
EST: gi|209705971|gb|BW661788.1|BW661788
EST:     CAACCAACGCTCTCTCTTCAGCCTCCATTCTACGCTCTCCCAACCGCCAG                         TCTCTGACCCGAAGAGCGAACCATAATGGAAGAGTAAATTACCGGAAACCG
genomic: CAACCAACGCTCTCTCTTCAGCCTCCATTCTACGCTCTCCCAACCGCCAGgtacgtacca ... ttttttacagTCTCTGACCCGAAGAGCGAACCATAATGGAAGAGTAAATTACCGGAAACCG
EST: gi|209722984|gb|BW668826.1|BW668826
EST:     CAACCAACGCTCTCTCTTCAGCCTCCATTCTACGCTCTCCCAACCGCCAG                         TCTCTGACCCGAAGAGCGAACCATAATGGAAGAGTAAATTACCGGAAACCG
genomic: CAACCAACGCTCTCTCTTCAGCCTCCATTCTACGCTCTCCCAACCGCCAGgtacgtacca ... ttttttacagTCTCTGACCCGAAGAGCGAACCATAATGGAAGAGTAAATTACCGGAAACCG
EST: gi|213587043|gb|DB965873.1|DB965873
EST:     CAACCAACGCTCTCTCTTCAGCCTCCATTCTACGCTCTCCCAACCGCCAG                         TCTCTGACCCGAAGAGCGAACCATAATGGAAGAGTAAATTACCGGAAACCG
genomic: CAACCAACGCTCTCTCTTCAGCCTCCATTCTACGCTCTCCCAACCGCCAGgtacgtacca ... ttttttacagTCTCTGACCCGAAGAGCGAACCATAATGGAAGAGTAAATTACCGGAAACCG
EST: gi|213588514|gb|DB961631.1|DB961631
EST:     CAACCAACGCTCTCTCTTCAGCCTCCATTCTACGCTCTCCCAACCGCCAG                         TCTCTGACCCGAAGAGCGAACCATAATGGAAGAGTAAATTACCGGAAACCG
genomic: CAACCAACGCTCTCTCTTCAGCCTCCATTCTACGCTCTCCCAACCGCCAGgtacgtacca ... ttttttacagTCTCTGACCCGAAGAGCGAACCATAATGGAAGAGTAAATTACCGGAAACCG
EST: gi|209712583|gb|BW653728.1|BW653728
EST:     CAACCAACGCTCTCTCTTCAGCCTCCATTCTACGCTCTCCCAACCGCCAG                         TCTCTGACCCGAAGAGCGAACCATAATGGAAGAGTAAATTACCGGAAACCG
genomic: CAACCAACGCTCTCTCTTCAGCCTCCATTCTACGCTCTCCCAACCGCCAGgtacgtacca ... ttttttacagTCTCTGACCCGAAGAGCGAACCATAATGGAAGAGTAAATTACCGGAAACCG
EST: gi|209697442|gb|BW667088.1|BW667088
EST:     CAACCAACGCTCTCTCTTCAGCCTCCATTCTACGCTCTCCCAACCGCCAG                         TCTCTGACCCGAAGAGCGAACCATAATGGAAGAGTAAATTACCGGAAACCG
genomic: CAACCAACGCTCTCTCTTCAGCCTCCATTCTACGCTCTCCCAACCGCCAGgtacgtacca ... ttttttacagTCTCTGACCCGAAGAGCGAACCATAATGGAAGAGTAAATTACCGGAAACCG
EST: gi|19052751|gb|BM731418.1|BM731418
EST:     CAACCAACGCTCTCTCTTCAGCCTCCATTCTACGCTCTCCCAACCGCCAG                         TCTCTGACCCGAAGAGCGAACCATAATGGAAGAGTAAATTACCGGAAACCG
genomic: CAACCAACGCTCTCTCTTCAGCCTCCATTCTACGCTCTCCCAACCGCCAGgtacgtacca ... ttttttacagTCTCTGACCCGAAGAGCGAACCATAATGGAAGAGTAAATTACCGGAAACCG
EST: gi|213600978|gb|DB968858.1|DB968858
EST:     CAACCAACGCTCTCTCTTCAGCCTCCATTCTACGCTCTCCCAACCGCCAG                         TCTCTGACCCGAAGAGCGAACCATAATGGAAGAGTAAATTACCGGAAACCG
genomic: CAACCAACGCTCTCTCTTCAGCCTCCATTCTACGCTCTCCCAACCGCCAGgtacgtacca ... ttttttacagTCTCTGACCCGAAGAGCGAACCATAATGGAAGAGTAAATTACCGGAAACCG
EST: gi|209700917|gb|BW683121.1|BW683121
EST:     GCCTCCATTCTACGCTCTCCCAACCGCCAG                         TCTCTGACCCTAAGAGCGAACCATAATGGAAGAGTAAATTACCGGAAACCG
genomic: GCCTCCATTCTACGCTCTCCCAACCGCCAGgtacgtacca ... ttttttacagTCTCTGACCCGAAGAGCGAACCATAATGGAAGAGTAAATTACCGGAAACCG
EST: gi|213590374|gb|DB963895.1|DB963895
EST:     CAACCAACGCTCTCTCTTCAGCCTCCATTCTACGCTCTCCCAACCGCCAG                         TCTCTGACCCGAAGAGCGAACCATAATGGAAGAGTAAATTACCGGAAACCG
genomic: CAACCAACGCTCTCTCTTCAGCCTCCATTCTACGCTCTCCCAACCGCCAGgtacgtacca ... ttttttacagTCTCTGACCCGAAGAGCGAACCATAATGGAAGAGTAAATTACCGGAAACCG
EST: gi|213595377|gb|DB968467.1|DB968467
EST:     CAACCAACGCTCTCTCTTCAGCCTCCATTCTACGCTCTCCCAACCGCCAG                         TCTCTGACCCGAAGAGCGAACCATAATGGAAGAGTAAATTACCGGAAACCG
genomic: CAACCAACGCTCTCTCTTCAGCCTCCATTCTACGCTCTCCCAACCGCCAGgtacgtacca ... ttttttacagTCTCTGACCCGAAGAGCGAACCATAATGGAAGAGTAAATTACCGGAAACCG
EST: gi|209700191|gb|BW653009.1|BW653009
EST:     CAACCAACGCTCTCTCTTCAGCCTCCATTCTACGCTCTCCCAACCGCCAG                         TCTCTGACCCGAAGAGCGAACCATAATGGAAGAGTAAATTACCGGAAACCG
genomic: CAACCAACGCTCTCTCTTCAGCCTCCATTCTACGCTCTCCCAACCGCCAGgtacgtacca ... ttttttacagTCTCTGACCCGAAGAGCGAACCATAATGGAAGAGTAAATTACCGGAAACCG
EST: gi|213590183|gb|DB970051.1|DB970051
EST:     CAACCAACGCTCTCTCTTCAGCCTCCATTCTACGCTCTCCCAACCGCCAG                         TCTCTGACCCGAAGAGCGAACCATAATGGAAGAGTAAATTACCGGAAACCG
genomic: CAACCAACGCTCTCTCTTCAGCCTCCATTCTACGCTCTCCCAACCGCCAGgtacgtacca ... ttttttacagTCTCTGACCCGAAGAGCGAACCATAATGGAAGAGTAAATTACCGGAAACCG
EST: gi|7924992|gb|AW831018.1|AW831018
EST:     CAACCAACGCTCTCTCTTCAGCCTCCATTCTACGCTCTCCCAACCGCCAG                         TCTCTGACCCGAAGAGCGAACCATAATGGAAGAGTAAATTACCGGAAACCG
genomic: CAACCAACGCTCTCTCTTCAGCCTCCATTCTACGCTCTCCCAACCGCCAGgtacgtacca ... ttttttacagTCTCTGACCCGAAGAGCGAACCATAATGGAAGAGTAAATTACCGGAAACCG
EST: gi|213603734|gb|DB966834.1|DB966834
EST:     CAACCAACGCTCTCTCTTCAGCCTCCATTCTACGCTCTCCCAACCGCCAG                         TCTCTGACCCGAAGAGCGAACCATAATGGAAGAGTAAATTACCGGAAACCG
genomic: CAACCAACGCTCTCTCTTCAGCCTCCATTCTACGCTCTCCCAACCGCCAGgtacgtacca ... ttttttacagTCTCTGACCCGAAGAGCGAACCATAATGGAAGAGTAAATTACCGGAAACCG
EST: gi|209709534|gb|BW681224.1|BW681224
EST:     CAACCAACGCTCTCTCTTCAGCCTCCATTCTACGCTCTCCCAACCGCCAG                         TCTCTGACCCGAAGAGCGAACCATAATGGAAGAGTAAATTACCGGAAACCG
genomic: CAACCAACGCTCTCTCTTCAGCCTCCATTCTACGCTCTCCCAACCGCCAGgtacgtacca ... ttttttacagTCTCTGACCCGAAGAGCGAACCATAATGGAAGAGTAAATTACCGGAAACCG
EST: gi|208199003|gb|GD995002.1|GD995002
EST:     TCTCCCAACCGCCAG                         TCTCTGACCCGAAGAGCGAACCATAATGGAAGAGTAAATTACCGGAAACCG
genomic: TCTCCCAACCGCCAGgtacgtacca ... ttttttacagTCTCTGACCCGAAGAGCGAACCATAATGGAAGAGTAAATTACCGGAAACCG
EST: gi|26058748|gb|CA801662.1|CA801662
EST:     CAACCAACGCTCTCTCTTCAGCCTCCATTCTACGCTCTCCCAACCGCCAG                         TCTCTGACCCGAAGAGCGAACCATAATGGAAGAGTAAATTACCGGAAACCG
genomic: CAACCAACGCTCTCTCTTCAGCCTCCATTCTACGCTCTCCCAACCGCCAGgtacgtacca ... ttttttacagTCTCTGACCCGAAGAGCGAACCATAATGGAAGAGTAAATTACCGGAAACCG
EST: gi|213602553|gb|DB956573.1|DB956573
EST:     CAACCAACGCTCTCTCTTCAGCCTCCATTCTACGCTCTCCCAACCGCCAG                         TCTCTGACCCGAAGAGCGAACCATAATGGAAGAGTAAATTACCGGAAACCG
genomic: CAACCAACGCTCTCTCTTCAGCCTCCATTCTACGCTCTCCCAACCGCCAGgtacgtacca ... ttttttacagTCTCTGACCCGAAGAGCGAACCATAATGGAAGAGTAAATTACCGGAAACCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccgattttatttgattggtttcgattttttttttcttcttttttcttttttacagTCTCTGACCCGAAGAGCGAACCATAATGGAAGAGTAAATTACCGGAAACCGAATAACCGTTTCTCCGTGAAAGCCTCCGCCAAAGAGATTGCCTTTGACC
        atttgat  putative branch site (score: 5)
              ttggtttcgatttttt  CT-rich tract
                  tttcgatttttttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtacgtaccaacgcaacgcaacgctacgctacgctacgctagcccctccaattttcaatttcactttccgattttatttgattggtttcgattttttttttcttcttttttcttttttacagTCTCTGACCCGAAGAGCGAACCATAATGGAAGAGTAAATTACCGGAAACCGAATAACCGTTTCTCCGTGAAAGCCTCCGCCAAAGAGATTGCCTTTGACC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA