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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagttgctttgtctatgctccttcatgcttttgtagtcctcattcttagggttatcttagtgctaatttgaagcaatatacttattttagGCTTGCATATTTGCATGAAGCAATTGAGCCAAAGGTGGTACACCGAGATATCAAGTCCAGCAACATATTAATTGATGACGACTTTAATGCCAAGGTTTCT

Basic information

species Glycine max
transcript GLYMA20G22550.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G22550.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv14s0060g00460.t01 (Vitis vinifera), 3'ss of exon 4
gtgagttgctttgtctatgctccttcatgcttttgtagtcctcattcttagggttatcttagtgctaatttgaagcaatatacttattttagGCTTGCATATTTGCATGAAGCAATTGAGCCAAAGGTGGTACACCGAGATATCAAGTCCAGCAACATATTAATTGATGACGACTTTAATGCCAAGGTTTCT
                          | |    | || |     | |||      || |   | || |||| | |  |||||||  ||  || ||||| || |||||||| || ||||||||||| ||||| ||||| || || || || || ||||| || |||||||| || || |||||||||||||||
------------------------gtaagtcaat-tactttatgtccttgccagcatttctttcctcatttaatgtgatatactggttgcagTCTTGCCTACTTGCATGAGGCCATTGAGCCAAAAGTGGTGCACCGGGACATTAAATCAAGTAACATTTTGATTGATGATGATTTCAATGCCAAGGTTTCT

upper sequence: GLYMA20G22550.1 (Glycine max), 3'ss of exon 3
lower sequence: PP1S568_2V6.1 (Physcomitrella patens), 3'ss of exon 4
--------gtgagttgctttgtctatgctc---cttcatgcttttgtagtcctcattcttagggttatcttagtgctaatttgaagcaatatacttatt--ttagGCTTGCATATTTGCATGAAGCAATTGAGCCAAAGGTGGTACACCGAGATATCAAGTCCAGCAACATATTAATTGATGACGACTTTAATGCCAAGGTTTCT
         |||      |  |  | ||||   |||||||   |||   |  |  ||   |  | | | | | |     ||  |||   | ||    ||  | ||  | |||||||||||||| ||  | || || ||||| ||||| |||||||||||||||||||||||  |  | ||||   | |  || || ||||| |||
aggccagtctgacacttgtaattcacgctcgtgcttcatgtccttgagattatagttgggaatgctctttcatt-----ttctaagtgttttagcggttgatcagATTGGCATATTTGCATGAGGCTTTGGAACCGAAGGTTGTACATCGAGATATCAAGTCCAGCAACATTCTTGTGGATGCACAGTGGAACGCAAAGGTGTCT

upper sequence: GLYMA20G22550.1 (Glycine max), 3'ss of exon 3
lower sequence: PP1S358_6V6.1 (Physcomitrella patens), 3'ss of exon 3
---gtgagttgctttgtctatgctccttcatgcttttgtagtcctcattcttagggttatcttagtgctaatttgaa---gcaatat-acttatt-ttagGCTTGCATATTTGCATGAAGCAATTGAGCCAAAGGTGGTACACCGAGATATCAAGTCCAGCAACATATTAATTGATGACGACTTTAATGCCAAGGTTTCT
    |    |    | | || | |   |     || | | ||  |  || ||    || | ||     |  ||| ||   ||| | | |||| |  ||||| | |||||||||||||| ||  | ||||| ||||| || ||||| |||||||| |||||||||||  |  | ||||   | |  ||||| ||||| |||
tttcttccctttcctttttacgtttgatttgttttgttttgttttgttttttttttttgttttttgttttttttaaatgtgcattgtgacttgtgattagGTTGGCATATTTGCATGAGGCTTTGGAGCCGAAGGTTGTGCACCGTGATATCAAATCCAGCAACATTCTTGTGGATGCGCAATGGAATGCTAAGGTGTCT

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|10845906|gb|BF071211.1|BF071211
EST:     TATCTTACCTGGGAAGCACGTATTAAAATTCTCCTTGGCACAGCTAAGGG                         GCTTGCATATTTGCATGAAGCAATTGAGCCAAAGGTGGTACACCGAGATAT
genomic: TATCTTACCTGGGAAGCACGTATTAAAATTCTCCTTGGCACAGCTAAGGGgtgagttgct ... cttattttagGCTTGCATATTTGCATGAAGCAATTGAGCCAAAGGTGGTACACCGAGATAT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtcctcattcttagggttatcttagtgctaatttgaagcaatatacttattttagGCTTGCATATTTGCATGAAGCAATTGAGCCAAAGGTGGTACACCGAGATATCAAGTCCAGCAACATATTAATTGATGACGACTTTAATGCCAAGGTTTCT
                         tgctaat  putative branch site (score: 2)
                                             cttatttt  putative PPT
                                       aatatacttatttta  TA-rich tract