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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgcactataattaccgacaatttatcgatgcactctttctctttttcttatttacaattaggtaacagggcttccgatgatgtgatcaataacttggtctttgccaacagATCCAAGAATTAGTTGAAGCAATTGTTTTGCCAATGACCTGCAAGGAGCGGTTCCAAAAATTAGGAGTTCGTCCACCGAAGGGAGTGCTCTTATATGGAC

Basic information

species Glycine max
transcript GLYMA03G39500.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G39500.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv14s0060g02260.t01 (Vitis vinifera), 3'ss of exon 4
gtgcactataattaccgacaatttatcgatgcactctttctctttttcttatttacaattaggtaacagggcttccgatgatgtgatcaataacttggtctttgc--caacagATCCAAGAATTAGTTGAAGCAATTGTTTTGCCAATGACCTGCAAGGAGCGGTTCCAAAAATTAGGAGTTCGTCCACCGAAGGGAGTGCTCTTATATGGAC
                  ||| || || ||    | |   | ||||    |  |     | | |     |  ||  |||  | | | | | ||||||    |     ||||||||||||||||||||||| |||||||||||||| |||||    ||||||||||| || ||||||||  |||| ||||| || |||||||| || |||||||
-----------------gcaagtt-tcaattt--tgtgcatattttatggaagtggttgttgcttgtccgatttttgatactttcaactaaaacttgcctctaattacaacagATCCAAGAATTAGTTGAGGCAATTGTTTTGCCCATGACACATAAGGAGCGGTTTCAGAAATTAGGTATTCGCCCACCTAAAGGAGTGCTTTTGTATGGAC
















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|23727048|gb|BU761539.1|BU761539
EST:     ATGAAAAGCCAACGGAGGACTACAATGACATTGGTGGTTTAGAGAAGCAG                         ATCCAAGAATTAGTTGAAGCAATTGTTTTGCCAA
genomic: ATGAAAAGCCAACGGAGGACTACAATGACATTGGTGGTTTAGAGAAGCAGgtgcactata ... ttgccaacagATCCAAGAATTAGTTGAAGCAATTGTTTTGCCAA
EST: gi|17400340|gb|BM177122.1|BM177122
EST:     ATGAAAAGCCAACGGAGGACTACAATGACATTGGTGGTTTAGAGAAGCAG                         ATCCAAGAATTAGTTGAAGCAATTGTTTTGCCAATGACCTGCAAAGAGCGG
genomic: ATGAAAAGCCAACGGAGGACTACAATGACATTGGTGGTTTAGAGAAGCAGgtgcactata ... ttgccaacagATCCAAGAATTAGTTGAAGCAATTGTTTTGCCAATGACCTGCAAGGAGCGG
EST: gi|16281884|gb|BI944719.1|BI944719
EST:     ATGAAAAGCCAACGGAGGACTACAATGACATTGGTGGTTTAGAGAAGCAG                         ATCCAAGAATTAGTTGAAGCAATTGTTTTGCCAATGACCTGCAAGGAGCGG
genomic: ATGAAAAGCCAACGGAGGACTACAATGACATTGGTGGTTTAGAGAAGCAGgtgcactata ... ttgccaacagATCCAAGAATTAGTTGAAGCAATTGTTTTGCCAATGACCTGCAAGGAGCGG
EST: gi|208272900|gb|GE072328.1|GE072328
EST:     ATGAAAAGCCAACGGAGGACTACAATGACATTGGTGGTTTAGAGAAGCAG                         ATCCAAGAATTAGTTGAAGCAATTGTTTTGCCAATGACCTGCAAGGAGCGG
genomic: ATGAAAAGCCAACGGAGGACTACAATGACATTGGTGGTTTAGAGAAGCAGgtgcactata ... ttgccaacagATCCAAGAATTAGTTGAAGCAATTGTTTTGCCAATGACCTGCAAGGAGCGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aattaggtaacagggcttccgatgatgtgatcaataacttggtctttgccaacagATCCAAGAATTAGTTGAAGCAATTGTTTTGCCAATGACCTGCAAGGAGCGGTTCCAAAAATTAGGAGTTCGTCCACCGAAGGGAGTGCTCTTATATGGAC
                               caataac  putative branch site (score: 2)
                                          tctttgcc  putative PPT
                             atcaataa  TA-rich tract