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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattccattgctgttattttttttttctgtccattttcgataatttaatgattttggcgtacgtgaagaaagaagaatgacttggttggcgttgttgcagTTTGAAGGTGAGCACAAAGAGAGTTTGTATTGGGGAACTTATCGTCCTCAGGTCTATCTTGGAATTCGTGCCAG

Basic information

species Glycine max
transcript GLYMA05G27890.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G27890.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv01s0010g03300.t01 (Vitis vinifera), 3'ss of exon 1
gtattccattgctgttattttttttttctgtccattttcgataatttaatgattttggcgtacgtgaagaaagaagaatgacttggttggcgttgttgcagTTTGAAGGTGAGCACAAAGAGAGTTTGTATTGGGGAACTTATCGTCCTCAGGTCTATCTTGGAATTCGTGCCAG
   |    ||||| |   |||||   | | |   ||||||||  || |||  ||||     || ||| |||   ||                 | ||||||||  |||| |||||||| ||||| |||||||||||||| ||||| |||||||| ||||||||||||||||||||
--gtaaagttgctttcgatttttcaatttttt--ttttcgatttttaaatttttttttgagacttgatgaatcgag-----------------tattgcagTTCCAAGGCGAGCACAAGGAGAGCTTGTATTGGGGAACATATCGCCCTCAGGTTTATCTTGGAATTCGTGCCAG
















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|213605478|gb|DB964617.1|DB964617
EST:     CTCGCGTTGTGACGCCGTTTCCCGCGCCAAAGATAACGGACCTTCCTCAG                         TTTGAAGGTGAGCACAAAGAGAGTTTGTATTGTGGAACTTATCGTCCTCAG
genomic: CTCGCGTTGTGACGCCGTTTCCCGCGCCAAAGATAACGGACCTTCCTCAGgtattccatt ... gttgttgcagTTTGAAGGTGAGCACAAAGAGAGTTTGTATTGGGGAACTTATCGTCCTCAG
EST: gi|213587163|gb|DB959542.1|DB959542
EST:     CTCGCGTTGTGACGCCGTTTCCCGCGCCAAAGATAACGGACCTTCCTCAG                         TTTGAAGGTGAGCACAAAGAGAGTTTGTATTGGGGAACTTATCGTCCTCAG
genomic: CTCGCGTTGTGACGCCGTTTCCCGCGCCAAAGATAACGGACCTTCCTCAGgtattccatt ... gttgttgcagTTTGAAGGTGAGCACAAAGAGAGTTTGTATTGGGGAACTTATCGTCCTCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taatgattttggcgtacgtgaagaaagaagaatgacttggttggcgttgttgcagTTTGAAGGTGAGCACAAAGAGAGTTTGTATTGGGGAACTTATCGTCCTCAGGTCTATCTTGGAATTCGTGCCAG
 atttaat  putative branch site (score: 4)
     atttt  TA-rich tract