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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...caatgcatatttagatgatgcccaataagcaatcttatcttgcaattgaaagctctcagtccttttctaatggttgttgtccttgaccataaattgaaagATCCTTGTACCACTTCCAGAACCAGTAGCAAGAAGAGCAATGTTCGAGGAACTCCTTCCTCAACAGCCTGATGAGGAACCGATCCCCTATGATATACTGG

Basic information

species Glycine max
transcript GLYMA05G26100.1
intron # 9
splice site 3'
intron type U12 (go to U12 genes for details)

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G26100.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv10s0003g03500.t01 (Vitis vinifera), 3'ss of exon 9
caatgc--atatttagatgatgcccaataagcaatcttatcttgcaattgaaagctctcagtccttt-tctaatggttg--ttgtccttgaccataaattgaaagATCCTTGTACCACTTCCAGAACCAGTAGCAAGAAGAGCAATGTTCGAGGAACTCCTTCCTCAACAGCCTGATGAGGAACCGATCCCCTATGATATACTGG
   |||  | ||||   |  ||   ||| |  ||    || |||||| | | || ||  | |  ||| | || ||  ||  || || || ||| |       |||||||||||||| ||||| ||||||| |||||||||||| ||||| ||||| ||||| ||   |   || | ||||||   | | || |||||| |  |||
-tgtgctgacattt---ttctgtgtaatgaagaaagagattttgcaact-agagttcatattattttatgtattgaatgatttttctttaaccttggtcaataagATCCTTGTACCCCTTCCGGAACCAGAAGCAAGAAGAGCCATGTTTGAGGAGCTCCTGCCATCAGTACCAGGTGAGGAGAAGCTTCCATATGATTTGATGG
















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|209715182|gb|BW665659.1|BW665659
EST:     ATCTTCCCTGGGAATTGGATGCAGCCATGCTCCGACGTCTTGAGAAGCGT                         ATCCTTGTACCACTTCCAGAACCAGTAGCAAGAAGAGCAATGTTCGAGGAA
genomic: ATCTTCCCTGGGAATTGGATGCAGCCATGCTCCGACGTCTTGAGAAGCGTgtatccttca ... aaattgaaagATCCTTGTACCACTTCCAGAACCAGTAGCAAGAAGAGCAATGTTCGAGGAA
EST: gi|51335898|gb|CO979764.1|CO979764
EST:     ATCTTCCCTGGGAATTGGATGCAGCCATGCTCCGACGTCTTGAGAAGCGT                         ATCCTTGTACCACTTCCAGAACCAGTAGCAAGAAGAGCAATGTTCGAGGAA
genomic: ATCTTCCCTGGGAATTGGATGCAGCCATGCTCCGACGTCTTGAGAAGCGTgtatccttca ... aaattgaaagATCCTTGTACCACTTCCAGAACCAGTAGCAAGAAGAGCAATGTTCGAGGAA
EST: gi|192328599|gb|FK023575.1|FK023575
EST:     ATCTTCCCTGGGAATTGGATGCAGCCATGCTCCGACGTCTTGAGAAGCGT                         ATCCTTGTACCACTTCCAGAACCAGTAGCAAGAAGAGCAATGTTCGAGGAA
genomic: ATCTTCCCTGGGAATTGGATGCAGCCATGCTCCGACGTCTTGAGAAGCGTgtatccttca ... aaattgaaagATCCTTGTACCACTTCCAGAACCAGTAGCAAGAAGAGCAATGTTCGAGGAA
EST: gi|9259433|gb|BE347580.1|BE347580
EST:     ATCTTCCCTGGGAATTGGATGCAGCCATGCTCCGACGTCTTGAGAAGCGT                         ATCCTTGTACCACTTCCAGAACCAGTAGCAAGAAGAGCAATGTTCGAGGAA
genomic: ATCTTCCCTGGGAATTGGATGCAGCCATGCTCCGACGTCTTGAGAAGCGTgtatccttca ... aaattgaaagATCCTTGTACCACTTCCAGAACCAGTAGCAAGAAGAGCAATGTTCGAGGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgaaagctctcagtccttttctaatggttgttgtccttgaccataaattgaaagATCCTTGTACCACTTCCAGAACCAGTAGCAAGAAGAGCAATGTTCGAGGAACTCCTTCCTCAACAGCCTGATGAGGAACCGATCCCCTATGATATACTGG
                                 gtccttgac  putative branch site 
                                           ataaattgaaa  TA-rich tract