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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ggtagcattgccaatttgccatgcttgttccttatatatcaagggaatttattgtgaaattcacttcactctgagtttgttaatattcataaagttgtggatttatgttttgtgcaGGATTTCAGTGATGAGAAACCTTTAGCATGGAGTCATTTCACTGCTGAGGGCGATGTCGAGTTCAAGGCAGTCCTGTTTGTACCACCTAAGGCACCTCAA

Basic information

species Glycine max
transcript GLYMA17G37820.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA17G37820.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv18s0001g14500.t01 (Vitis vinifera), 3'ss of exon 9
ggtagcattgccaatttgccatgcttgttccttatatatcaagggaattt-attgtgaaattcacttcactctgagtt--tgttaatattcataaagttgtggatttatgttttgt---gcaGGATTTCAGTGATGAGAAACCTTTAGCATGGAGTCATTTCACTGCTGAGGGCGATGTCGAGTTCAAGGCAGTCCTGTTTGTACCACCTAAGGCACCTCAA-
    |||    | | || || || |  ||| ||| || ||||   | | | |||||    ||    |  |   |  |   | ||   ||   |    |     |||| | | ||||    |||||||| ||||| ||||| ||| || |||||||||| ||||| ||||| || ||||| ||||||||||| ||  ||||||| || |||||||| |||||  
----gcaaattccaattcccttggt--ttcattacatttcaaaatactctgattgttttttttggcttcccaagtatcactctttccatcagttggataacatattt-tatcttgttcaacagGATTTTAGTGAAGAGAAGCCTCTATCATGGAGTCACTTCACCGCTGAAGGTGATGTGGAGTTCAAGGCTGTTTTGTTTGTGCCTCCTAAGGCTCCTCAGG

upper sequence: GLYMA17G37820.1 (Glycine max), 3'ss of exon 9
lower sequence: EFJ17496 (Selaginella moellendorffii), 3'ss of exon 10
ggtagcattgccaatttgccatgcttgttccttatatatcaagggaatttattgtgaaattcacttcactctgagtttgttaatattcataaa-gttgtggattt---atgttttgtgcaGGATTTCAGTGATGAGAAACCTTTAGCATGGAGTCATTTCACTGCTGAGGGCGATGTCGAGTTCAAGGCAGTCCTGTTTGTACCACCTAAGGCACCTCAA-
                                                                       |||| | | |   |||   ||| |||||  ||||    ||  |||| |||||||  |     || || ||  |  | |||||||||||| |||| || || ||||||||||||||||| ||  ||||  | || || ||||| || ||  
----------------------------------------------------------------------gtgagct-gatgtgattggcaaatgttgtcaattttacgtgcattgttcagGATTATAACCCCGACAAGCCAATGTCCTGGAGTCATTTCTCTGCGGAAGGAGATGTCGAGTTCAAGGCTGTGTTGTTCATTCCTCCGAAGGCTCCGCATG
















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|58017096|gb|CX703838.1|CX703838
EST:     AAGGAGGTTACAGAAGAAGAATACACCAAATTCTACCACTCTCTTGCCAA                         GGATTTCAGTGATGAGAAACCTTTAGCATGGAGTCATTTCACTGCTGAGGG
genomic: AAGGAGGTTACAGAAGAAGAATACACCAAATTCTACCACTCTCTTGCCAAggtagcattg ... gttttgtgcaGGATTTCAGTGATGAGAAACCTTTAGCATGGAGTCATTTCACTGCTGAGGG
EST: gi|24205491|gb|BU964744.1|BU964744
EST:     AAGGAGGTTACAGAAGAAGAATACACCAAATTCTACCACTCTCTTGCCAA                         GGATTTCAGTGATGAGAAACCTTTAGCATGGAGTCATTTCACTGCTGAGGG
genomic: AAGGAGGTTACAGAAGAAGAATACACCAAATTCTACCACTCTCTTGCCAAggtagcattg ... gttttgtgcaGGATTTCAGTGATGAGAAACCTTTAGCATGGAGTCATTTCACTGCTGAGGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cacttcactctgagtttgttaatattcataaagttgtggatttatgttttgtgcaGGATTTCAGTGATGAGAAACCTTTAGCATGGAGTCATTTCACTGCTGAGGGCGATGTCGAGTTCAAGGCAGTCCTGTTTGTACCACCTAAGGCACCTCAA
                tgttaat  putative branch site (score: 3)
              tttgttaatattcata  TA-rich tract