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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatacaaattttaattctttacatttatatttttatgaattttctgatgagttcatgacttttctctcagACTAGCATTGTTTTCAGTCTAGAAGAAGGTCCAGGTGTACTATTCAAAGCCTTGGCAGTTTTTGCTATGAGGGATATTAATTTGTCAAAG

Basic information

species Glycine max
transcript GLYMA17G01610.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA17G01610.1 (Glycine max), 3'ss of exon 7
lower sequence: AT1G11790.2 (Arabidopsis thaliana), 3'ss of exon 7
--------gtatacaaattttaattctttacatttatattttta---tgaattttctgatgagttcatgact-tttctctcagACTAGCATTGTTTTCAGTCTAGAAGAAGGTCCAGGTGTACTATTCAAAGCCTTGGCAGTTTTTGCTATGAGGGATATTAATTTGTCAAAG----------
         | |  |  |  ||| |  ||    | ||| || ||   |  |  | |  ||          || |||||||||||| || || || |||   |||||||||||||| ||||| || ||||| |||||||| ||||||||| |  |    ||||| || || |||          
gtaatcacatctttatgtactaactaattcggctgatacttgtaagttataactcccaatagtaatgcttctgtttctctcagACAAGTATCGTGTTCTCGCTAGAAGAAGGTCCTGGTGTGCTGTTCAAGGCCTTGGCTGTTTTTGCTTTACGAAGCATTAACTTATCTAAGGTAAGTTCCA

upper sequence: GLYMA17G01610.1 (Glycine max), 3'ss of exon 7
lower sequence: AT1G11790.1 (Arabidopsis thaliana), 3'ss of exon 7
--------gtatacaaattttaattctttacatttatattttta---tgaattttctgatgagttcatgact-tttctctcagACTAGCATTGTTTTCAGTCTAGAAGAAGGTCCAGGTGTACTATTCAAAGCCTTGGCAGTTTTTGCTATGAGGGATATTAATTTGTCAAAG
         | |  |  |  ||| |  ||    | ||| || ||   |  |  | |  ||          || |||||||||||| || || || |||   |||||||||||||| ||||| || ||||| |||||||| ||||||||| |  |    ||||| || || |||
gtaatcacatctttatgtactaactaattcggctgatacttgtaagttataactcccaatagtaatgcttctgtttctctcagACAAGTATCGTGTTCTCGCTAGAAGAAGGTCCTGGTGTGCTGTTCAAGGCCTTGGCTGTTTTTGCTTTACGAAGCATTAACTTATCTAAG
















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|51335625|gb|CO979491.1|CO979491
EST:     TGGTCCTTGCAAGGGAGCCTATAATTCCAGGAACTGACAGGCCCCATAAG                         ACTAGCATTGTTTTCAGTCTAGAAGAAGGTCCAGGTGTACTATTCAAAGCC
genomic: TGGTCCTTGCAAGGGAGCCTATAATTCCAGGAACTGACAGGCCCCATAAGgtatacaaat ... tttctctcagACTAGCATTGTTTTCAGTCTAGAAGAAGGTCCAGGTGTACTATTCAAAGCC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctttacatttatatttttatgaattttctgatgagttcatgacttttctctcagACTAGCATTGTTTTCAGTCTAGAAGAAGGTCCAGGTGTACTATTCAAAGCCTTGGCAGTTTTTGCTATGAGGGATATTAATTTGTCAAAG
                          ttctgat  putative branch site (score: 3)
                                           cttttctctc  putative PPT
     acatttatatttttat  TA-rich tract