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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactccctcaaaccctaatactttctttctctctctcccatttcataaacaaataaccgactttttcatttttctcgcataatttcagATGCGAGCATATGGATGGTACAGTTTGTCAAAGCGATGCGCGACGAGAAGGGCGAAATGGTTCGCAACGCCCATTTGCTGGGCTTCTTCCGTCGCATTTG

Basic information

species Glycine max
transcript GLYMA01G16370.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA01G16370.1 (Glycine max), 3'ss of exon 1
lower sequence: AT3G28030.1 (Arabidopsis thaliana), 3'ss of exon 1
gtactccctcaaaccctaatactttctttctctctctcccatttcataaacaaataaccgactttttcatttttctcgcataatttcagATGCGAGCATATGGATGGTACAGTTTGTCAAAGCGATGCGCGACGAGAAGGGCGAAATGGTTCGCAACGCCCATTTGCTGGGCTTCTTCCGTCGCATTTG
           || |  |   |   |  ||    ||     | |  ||   |  |  ||| ||| ||| ||  ||   |  | || |||||||||| |||||||||||||| ||| ||||||||||||| ||||||||||| || |||||||  || || || ||| | || || || ||  | |||||
---------gtaaacaaatctccggcgatcaacttcaattgtattgtat-tatttttccggcttcttc-ttcatcgttcgaatttgcagATGCGAGTATATGGATGGTACAATTTATCAAAGCGATGCGTGACGAGAAGGGAGATATGGTTCAGAATGCACACTTGATCGGGTTTTTTCGAAGGATTTG

upper sequence: GLYMA01G16370.1 (Glycine max), 3'ss of exon 1
lower sequence: EDP06305 (Chlamydomonas reinhardtii), 3'ss of exon 1
--------gtactccct--caaaccctaatactttctttctctctctcccatttcataaacaaataaccgactttttcatttttc--tcgcataatttcagATGCGAGCATATGGATGGTACAGTTTGTCAAAGCGATGCGCGACGAGAAGGGCGAAATGGTTCGCAACGCCCATTTGCTGGGCTTCTTCCGTCGCATTTG
        ||| | ||   |  |||      |  |        || |  ||         |      |||    |    |   ||   |||     | ||||||||  ||| ||| || | |||||| | || || ||||||||||| |||||||| ||| | |||||||| ||| | |||||||||||||| ||||| ||
aagggaaagtagtgcccagccgaccgcgtggccctgcccaaaccttttgcaccgtgcgc-ctggcccccgctcctcctctccctcggccgcgcccctgcagATGCGTCCATCTGGCTGTTTCAGTTTATGAAGGCCATGCGCGACGACAAGGGCGACATGATGCGCAACGCGCATCTTCTGGGCTTCTTCCGCCGCATCTG
















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|193647233|gb|FK588400.1|FK588400
EST:     CGGTCGCCGCGTCTCCGTCGAAACCCTTGCCGGAAAAACCCTAGCCGTTG                         ATGCGAGCATATGGATGGTACAGTTTGTCAAAGCGATGCGCGACGAGAAGG
genomic: CGGTCGCCGCGTCTCCGTCGAAACCCTTGCCGGAAAAACCCTAGCCGTTGgtactccctc ... ataatttcagATGCGAGCATATGGATGGTACAGTTTGTCAAAGCGATGCGCGACGAGAAGG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctcccatttcataaacaaataaccgactttttcatttttctcgcataatttcagATGCGAGCATATGGATGGTACAGTTTGTCAAAGCGATGCGCGACGAGAAGGGCGAAATGGTTCGCAACGCCCATTTGCTGGGCTTCTTCCGTCGCATTTG
                 aaataac  putative branch site (score: 2)
      atttcataaacaaata  TA-rich tract