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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattttcgtttccttctcttcatcggaataataatcacaatacttttgtcaaacccttcttgttcacatttaatttcactctagGTATCAAATGCTATCAAGCAGGTCAAGTTTGAACCTGTTAAAATTTCGCTTAAGGATTGTTTGGCATGCAG

Basic information

species Glycine max
transcript GLYMA17G01120.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA17G01120.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv00s1693g00010.t01 (Vitis vinifera), 3'ss of exon 1
--------------gtattttcgtttccttctcttcatcggaataataatcacaatacttttgtcaaaccctt-cttgttcacatttaatttcactct--agGTATCAAATGCTATCAAGCAGGTCAAGTTTGAACCTGTTAAAATTTCGCTTAAGGATTGTTTGGCATGCAG-----------------------------
               |  |  |||    || |  || |  ||    |  ||  | |  |||||   |    ||  || || || |||  || |       ||||    |  | || |||    |  ||   |||||||||||| ||||||||||||||||| || ||||||||                             
ttaggtaatagatgttggtagcgtgaagttatggtcttttgag-gttgttcttattcattttgcttattatttatttatttac-tttgtttccgtggagaagGTTGTGACGGGTACCAAATCAGCAAACACTGAACCTGTTAAGATTTCGCTTAAGGATTGCTTAGCATGCAGGTACAACTCTTTCTCCCCCATGCTTTTAA

upper sequence: GLYMA17G01120.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv00s0508g00020.t01 (Vitis vinifera), 3'ss of exon 1
--------------gtattttcgtttccttctcttcatcggaataataatcacaatacttttgtcaaaccctt-cttgttcacatttaatttcactct--agGTATCAAATGCTATCAAGCAGGTCAAGTTTGAACCTGTTAAAATTTCGCTTAAGGATTGTTTGGCATGCAG
               |  |  |||    || |  || |  ||    |  ||  | |  |||||   |    ||  || || || |||  || |       ||||    |  | || |||    |  ||   |||||||||||| ||||||||||||||||| || ||||||||
ttaggtaatagatgttggtagcgtgaagttatggtcttttgag-gttgttcttattcattttgcttattatttatttatttac-tttgtttccgtggagaagGTTGTGACGGGTACCAAATCAGCAAACACTGAACCTGTTAAGATTTCGCTTAAGGATTGCTTAGCATGCAG
















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|208181329|gb|GD974624.1|GD974624
EST:     AGGCATGCATAGTCTCCCTCAAAGGATTGTAAAAGAATGATAAACCGGAG                         GTATCAAATGCTATCAAGCAG
genomic: AGGCATGCATAGTCTCCCTCAAAGGATTGAAAAAGAATGATAAACCGGAGgtattttcgt ... ttcactctagGTATCAAATGCTATCAAGCAG
EST: gi|192331967|gb|FK024511.1|FK024511
EST:     AGGCATGCATAGTCTCCCTCAAAGGATTGAAAAAGAATGATAAACCGGAG                         GTATCAAATGCTATCAAGCAGGTCAAGTTTGAACCTGTTAAAATTTCGCTT
genomic: AGGCATGCATAGTCTCCCTCAAAGGATTGAAAAAGAATGATAAACCGGAGgtattttcgt ... ttcactctagGTATCAAATGCTATCAAGCAGGTCAAGTTTGAACCTGTTAAAATTTCGCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aataatcacaatacttttgtcaaacccttcttgttcacatttaatttcactctagGTATCAAATGCTATCAAGCAGGTCAAGTTTGAACCTGTTAAAATTTCGCTTAAGGATTGTTTGGCATGCAG
                                      atttaat  putative branch site (score: 4)
                                            tttcactct  CT-rich tract
                                 ttcacatttaattt  TA-rich tract