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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatccccgatttcccctcgtgcgttgatttcaacaagcttatcattaccaatttttagggttttttcttgatgttgcggtagcagTTTTTTCATCGTATTGATTTCTTCAACAGGCGACGATGATCTGTATCGACAATTCTGAATGGATGCGTAACGGTGATTACTCTCCTTCTCGATTTCAAGC

Basic information

species Glycine max
transcript GLYMA01G36990.2
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA01G36990.2 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G165926_T01 (Zea mays), 3'ss of exon 1
gtaatccccgatttcccctcgtgcgttgatttcaacaagcttatcattaccaatttttagggttttttcttgatgttgcggtagcagTTTTTTCATCGTATTGATTT-CTTCAACAGGCGACGATGATCTGTATCGACAATTCTGAATGGATGCGTAACGGTGATTACTCTCCTTCTCGATTTCAAGC-----------------------------
                              | | ||| ||       | ||  || |           ||     |  |  || |   | |  |||||| ||| ||| | |   ||||| ||||||||||| || |||||||| ||||||||||| ||||| || ||| |||| || || || || ||                             
-----------------------------gtacgacatgcgccctgctgccgtttctcgctccgagaactccg-atccc--taactaatctcccatcgtgttggttttcctttgcagGCAACGATGATCTGCATAGACAATTCGGAATGGATGCGGAACGGCGACTACGCTCCGTCGCGGTTCCAGGCGCAGGCCGATGCCGTCAACCTCATCTGCG

upper sequence: GLYMA01G36990.2 (Glycine max), 3'ss of exon 1
lower sequence: Vv04s0023g03620.t01 (Vitis vinifera), 3'ss of exon 1
gtaatccccgatttcccctcgtgcgttgatttcaacaagcttatcattaccaatttttagggttttttcttgatgttgcgg-tagcagTTTTTTCATCG----TATTGATTT-CTTCAA-------CAGGCGACGATGATCTGTATCGACAATTCTGAATGGATGCGTAACGGTGATTACTCTCCTTCTCGATTTCAAGC-----------------------------
         |  |  ||    | | |  | ||   | |   |||  || | ||| ||||   | ||||  |  | |  |   |    ||||| ||| ||    | || |||| | |||        |||||||| |||||||||||||||||||| ||||||||||| || || ||||| |||||  || ||||||| ||                             
-----gtatgcctatcctatttacttccacttttgccattctat--ttcctaatatttatactctttttcttctttcacaaattagggttttctcaccgattattttaatttgcatcattctgattcagGCGACTATGATCTGTATCGACAATTCCGAATGGATGCGAAATGGCGATTATTCTCCCACTAGATTTCAGGCTCAAGCCGACGCCGTTAATCTTATCTGTG

upper sequence: GLYMA01G36990.2 (Glycine max), 3'ss of exon 1
lower sequence: EFJ17485 (Selaginella moellendorffii), 3'ss of exon 1
gtaatccccgatttcccctcgtgcgttgatttcaacaagcttatcattaccaatttttagggttttttcttgatgttgcggtagcagTTTTTTCATCGTATTGATTTCTTCAACAGGCGACGATGATCTGTATCGACAATTCTGAATGGATGCGTAACGGTGATTACTCTCCTTC---TCGATTTCAAGC--------------------------
                                                                |  ||  ||| || |     |||   | || ||        |  |    ||||||||||||||||| || |||||||| || |||||||| || || || |||| |||  |   | |||| ||  |                          
----------------------------------------------------------gtaagctcctcgcgatctttca-cgccaggcctatcttc--------tcttgtgccagGCGACGATGATCTGCATAGACAATTCCGAGTGGATGCGAAATGGGGACTACTATCCGACGAGTAGATTCCAGTCCCAAGCTGATGCTGTCAATCTTATCT

upper sequence: GLYMA01G36990.2 (Glycine max), 3'ss of exon 1
lower sequence: EFJ28815 (Selaginella moellendorffii), 3'ss of exon 1
gtaatccccgatttcccctcgtgcgttgatttcaacaagcttatcattaccaatttttagggttttttcttgatgttgcggtagcagTTTTTTCATCGTATTGATTTCTTCAACAGGCGACGATGATCTGTATCGACAATTCTGAATGGATGCGTAACGGTGATTACTCTCCTTC---TCGATTTCAAGC--------------------------
                                                                |  ||  ||| || |     |||   | || ||        |  |    ||||||||||||||||| || |||||||| || |||||||| || || || |||| |||  |   | |||| ||  |                          
----------------------------------------------------------gtaagctcctcgcgatctttca-cgccaggcctatcttc--------tcttgtgccagGCGACGATGATCTGCATAGACAATTCCGAGTGGATGCGAAATGGGGACTACTATCCGACGAGTAGATTCCAGTCCCAAGCCGATGCTGTCAATCTTATCT

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|193319077|gb|FK285941.1|FK285941
EST:     CAAACTTCTTTCACTCTTTCGCTTCTGAATCTTCAACAATGGTGCTCGAG                         TTTTTTCATCGTATTGATTTCTTCAACAGGCGACGATGATCTGTATCGACA
genomic: CAAACTTCTTTCACTCTTTCGCTTCTGAATCTTCAACAATGGTGCTCGAGgtaatccccg ... gcggtagcagTTTTTTCATCGTATTGATTTCTTCAACAGGCGACGATGATCTGTATCGACA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caacaagcttatcattaccaatttttagggttttttcttgatgttgcggtagcagTTTTTTCATCGTATTGATTTCTTCAACAGGCGACGATGATCTGTATCGACAATTCTGAATGGATGCGTAACGGTGATTACTCTCCTTCTCGATTTCAAGC
                                   tcttgat  putative branch site (score: 4)
             attaccaattttta  TA-rich tract