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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttcattatatgtaacatgatgagtcttgtcacatttcttcttatttttatgcctctaagtctgatataaatgacatgagttgcagCATGACAGAACCACAGCCAAAGTATTCTGCATTCCGAGAGGCCAGCTTTGGACATGCCATTTTTGACATAACGAACCGAACTCATGCTCACTATAGCTGG

Basic information

species Glycine max
transcript GLYMA12G01000.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA12G01000.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv03s0038g00250.t01 (Vitis vinifera), 3'ss of exon 7
-----gtaagttcattatatgtaacatgatgagtcttgt----cacatttcttcttatttttatgcctctaagtctgatataaatgacatgagttgcagCATGACAGAACCACAGCCAAAGTATTCTGCATTCCGAGAGGCCAGCTTTGGACATGCCATTTTTGACATAACGAACCGAACTCATGCTCACTATAGCTGG
      | ||  |||    ||||  ||  ||  |  | |     | || ||| ||  ||   | |   ||    || |  ||  |   |  |  | |||||||||||| |||||||| ||||| ||||| |  || || ||||| ||||||||||||||||||||||  | ||||||||| |||||||| ||||| |||
gtaagattagcacatatcttgtataattctgtcttctatgttgtaaatgtctcctatttgaaacgatactggagctaaattatgttctacaa--ttcagCATGACAGAGCCACAGCCGAAGTACTCTGCTTATCGTGAAGCCAGTTTTGGACATGCCATTTTTGACACCAAGAACCGAACCCATGCTCAGTATAGTTGG

upper sequence: GLYMA12G01000.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv03s0038g00230.t01 (Vitis vinifera), 3'ss of exon 7
-----gtaagttcattatatgtaacatgatgagtcttgt----cacatttcttcttattttta-tgcctctaagtctgatataaatgacatgagttgcagCATGACAGAACCACAGCCAAAGTATTCTGCATTCCGAGAGGCCAGCTTTGGACATGCCATTTTTGACATAACGAACCGAACTCATGCTCACTATAGCTGG
      | ||  |||    ||||  ||  ||  |  | |     | || || || |||||  |  | | ||    ||||  ||  |   |  |  | |||||||||||| |||||||| ||||| ||||| |  || || ||||| ||||||||||||||||||||||| | ||||||||| |||||||||||||| |||
gtaagattagcacatatcttgtataattctgtcttctatgttgtaaatgtcctcctatttgaaacgacactggagctgaattatgttctacaa--ttcagCATGACAGAGCCACAGCCGAAGTACTCTGCTTATCGTGAAGCCAGTTTTGGACATGCCATTTTTGACATCAAGAACCGAACCCATGCTCACTATAGTTGG
















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|193527621|gb|FK486371.1|FK486371
EST:     GTATATATAACCATTGGGGATGGAGGAAACCTTGAAGGTTTAGCAACCAA                         CATGACAGAACCACAGCCAAAGTATTCTGCATTCCGAGAGGCCAGCTTTGG
genomic: GTATATATAACCATTGGGGATGGAGGAAACCTTGAAGGTTTAGCAACCAAgtaagttcat ... tgagttgcagCATGACAGAACCACAGCCAAAGTATTCTGCATTCCGAGAGGCCAGCTTTGG
EST: gi|16997288|gb|BM086660.1|BM086660
EST:     GTATATATAACCATTGGGGATGGAGGAAACCTTGAAGGTTTAGCAACCAA                         CATGACAGAACCACAGCCAAAGTATTCTGCATTCCGAGAGGCCAGCTTTGG
genomic: GTATATATAACCATTGGGGATGGAGGAAACCTTGAAGGTTTAGCAACCAAgtaagttcat ... tgagttgcagCATGACAGAACCACAGCCAAAGTATTCTGCATTCCGAGAGGCCAGCTTTGG
EST: gi|5760211|gb|AI965574.1|AI965574
EST:     GTATATATAACCATTGGGGATGGAGGAAACCTTGAAGGTTTAGCAACCAA                         CATGACAGAACCACAGCCAAAGTATTCTGCATTCCGAGAGGCCAGCTTTGG
genomic: GTATATATAACCATTGGGGATGGAGGAAACCTTGAAGGTTTAGCAACCAAgtaagttcat ... tgagttgcagCATGACAGAACCACAGCCAAAGTATTCTGCATTCCGAGAGGCCAGCTTTGG
EST: gi|11273831|gb|BF324220.1|BF324220
EST:     GTATATATAACCATTGGGGATGGAGGAAACCTTGAAGGTTTAGCAACCAA                         CATGACAGAACCACAGCCAAAGTATTCTGCATTCCGAGAGGCCAGCTTTGG
genomic: GTATATATAACCATTGGGGATGGAGGAAACCTTGAAGGTTTAGCAACCAAgtaagttcat ... tgagttgcagCATGACAGAACCACAGCCAAAGTATTCTGCATTCCGAGAGGCCAGCTTTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acatttcttcttatttttatgcctctaagtctgatataaatgacatgagttgcagCATGACAGAACCACAGCCAAAGTATTCTGCATTCCGAGAGGCCAGCTTTGGACATGCCATTTTTGACATAACGAACCGAACTCATGCTCACTATAGCTGG
                            gtctgat  putative branch site (score: 4)
     tcttcttatttttat  TA-rich tract