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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aaatttcttggattatttttttatagttgtttgtttcccttttttttttattatttttcttaaagcaactgtttccaacatttgccttctttgtttgcagGGATTCTTACCACCAGATGAAGTTCATATTTTTGGCTATGCAAGGACAAAAATCTCTGATGATGAATTGAGAAACCGGTTGCGCGG

Basic information

species Glycine max
transcript GLYMA16G06850.2
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G06850.1 (Glycine max), 3'ss of exon 2
lower sequence: AT3G27300.2 (Arabidopsis thaliana), 3'ss of exon 3
aaatttcttggattatttttttatagttgtt-tgtttcccttttttttttattatttttcttaaagcaactgtttccaacatttgccttctttgtttgcagGGATTCTTACCACCAGATGAAGTTCATATTTTTGGCTATGCAAGGACAAAAATCTCTGATGATGAATTGAGAAACCGGTTGCGCGG
   ||| ||  |  |       ||  || || | |||   | ||||   | | | || | || |   |  || |      ||| |  ||   ||    ||||||||  |    ||||||||||||||||| ||||| ||||||||||  || ||  ||||||| ||  | ||| |     | |||||
--gtttttttaaacaaacaagaatcttttttatcttttattgttttcaatgtcacttgtttttatttatttgatgtgtttattggttttacatgagcacagGGATTTCTTAATCCAGATGAAGTTCATATATTTGGATATGCAAGGAGTAAGATTACTGATGAGGAGCTTAGAGATAAAATCCGCGG

upper sequence: GLYMA16G06850.1 (Glycine max), 3'ss of exon 2
lower sequence: AT5G40760.1 (Arabidopsis thaliana), 3'ss of exon 2
aaatttcttggattatttttttatagttgtttgtttcccttttttttttattatttttcttaaagcaactgtttccaacattt--gccttctttgtttg-cagGGATTCTTACCACCAGATGAAGTTCATATTTTTGGCTATGCAAGGACAAAAATCTCTGATGATGAATTGAGAAACCGGTTGCGCGG
            ||  ||   |||    | | ||     | ||    | | |  | |  ||||      |  ||      |||  |  || | || | | ||||||||  |    |||||||||||||||||||| || ||||| ||||| || || |||||||| ||  ||||| |  || | || ||
-----------gtttgttccatatcagagctggtgcatgtgttagaatcaatcctctggttaattgtgttagttatggtttttttggtttgtatgatggtcagGGATTTCTCAATCCAGATGAAGTTCATATTTTCGGGTATGCGAGGACTAAGATTTCTGATGAAGAGCTGAGAGATAGGATTCGTGG
















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|19268946|gb|BM885202.1|BM885202
EST:     ATCTTGCTAAGAAGAAGACATTTCCTGCACTTTTCCACCTATACCTGCAG                         GGATTCTTACCACCAGATGAAGTTCATATTTTTGGCTATGCAAGGACAAAA
genomic: ATCTTGCTAAGAAGAAGACATTTCCTGCACTTTTCCACCTATACCTGCAGgtaaagcaga ... ttgtttgcagGGATTCTTACCACCAGATGAAGTTCATATTTTTGGCTATGCAAGGACAAAA
EST: gi|21637841|gb|BM107996.1|BM107996
EST:     TCTTGCTAAGAAAGAAGACATTTCCTGCACTTTTCCACCTATACCTGCAG                         GGATTCTTACCACCAGATGAAGTTCATATTTTTGGCTATGCAAGGACAAAA
genomic: TCTTGCTAAG-AAGAAGACATTTCCTGCACTTTTCCACCTATACCTGCAGgtaaagcaga ... ttgtttgcagGGATTCTTACCACCAGATGAAGTTCATATTTTTGGCTATGCAAGGACAAAA
EST: gi|33390099|gb|CA853306.1|CA853306
EST:     ATCTTGCTAAGAAGAAGACATTTCCTGCACTTTTCCACCTATACCTGCAG                         GGATTCTTACCACCAGATGAAGTTCATATTTTTGGCTATGCAAGGACAAAA
genomic: ATCTTGCTAAGAAGAAGACATTTCCTGCACTTTTCCACCTATACCTGCAGgtaaagcaga ... ttgtttgcagGGATTCTTACCACCAGATGAAGTTCATATTTTTGGCTATGCAAGGACAAAA
EST: gi|11273943|gb|BF324331.1|BF324331
EST:     ATCTTGCTAAGAAGAAGACATTTCCTGCACTTTTCCACCTATACCTGCAG                         GGATTCTTACCACCAGATGAAGTTCATATTTTTGGCTATGCAAGGACAAAA
genomic: ATCTTGCTAAGAAGAAGACATTTCCTGCACTTTTCCACCTATACCTGCAGgtaaagcaga ... ttgtttgcagGGATTCTTACCACCAGATGAAGTTCATATTTTTGGCTATGCAAGGACAAAA
EST: gi|19453077|gb|BM954487.1|BM954487
EST:     ATCTTGCTAAGAAGAAGACATTTCCTGCACTTTTCCACCTATACCTGCAG                         GGATTCTTACCACCAGATGAAGTTCATATTTTTGGCTATGCAAGGACAAAA
genomic: ATCTTGCTAAGAAGAAGACATTTCCTGCACTTTTCCACCTATACCTGCAGgtaaagcaga ... ttgtttgcagGGATTCTTACCACCAGATGAAGTTCATATTTTTGGCTATGCAAGGACAAAA
EST: gi|9986040|gb|BE660148.1|BE660148
EST:     ATCTTGCTAAGAAGAAGACATTTCCTGCACTTTTCCACCTATACCTGCAG                         GGATTCTTACCACCAGATGAAGTTCATATTTTTGGCTATGCAAGGACAAAA
genomic: ATCTTGCTAAGAAGAAGACATTTCCTGCACTTTTCCACCTATACCTGCAGgtaaagcaga ... ttgtttgcagGGATTCTTACCACCAGATGAAGTTCATATTTTTGGCTATGCAAGGACAAAA
EST: gi|213607767|gb|DB959106.1|DB959106
EST:     ATCTTGCTAAGAAGAAGACATTTCCTGCACTTTTCCACCTATACCTGCAG                         GGATTCTTACCACCAGATGAAGTTCATATTTTTGGCTATGCAAGGACAAAA
genomic: ATCTTGCTAAGAAGAAGACATTTCCTGCACTTTTCCACCTATACCTGCAGgtaaagcaga ... ttgtttgcagGGATTCTTACCACCAGATGAAGTTCATATTTTTGGCTATGCAAGGACAAAA
EST: gi|213608230|gb|DB970827.1|DB970827
EST:     ATCTTGCTAAGAAGAAGACATTTCCTGCACTTTTCCACCTATACCTGCAG                         GGATTCTTACCACCAGATGAAGTTCATATTTTTGGCTATGCAAGGACAAAA
genomic: ATCTTGCTAAGAAGAAGACATTTCCTGCACTTTTCCACCTATACCTGCAGgtaaagcaga ... ttgtttgcagGGATTCTTACCACCAGATGAAGTTCATATTTTTGGCTATGCAAGGACAAAA
EST: gi|37995559|gb|CF807148.1|CF807148
EST:     ATCTTGCTAAGAAGAAGACATTTCCTGCACTTTTCCACCTATACCTGCAG                         GGATTCTTACCACCAGATGAAGTTCATATTTTTGGCTATGCAAGGACAAAA
genomic: ATCTTGCTAAGAAGAAGACATTTCCTGCACTTTTCCACCTATACCTGCAGgtaaagcaga ... ttgtttgcagGGATTCTTACCACCAGATGAAGTTCATATTTTTGGCTATGCAAGGACAAAA
EST: gi|15663680|gb|BI701051.1|BI701051
EST:     ATCTTGCTAAGAAGAAGACATTTCCTGCACTTTTCCACCTATACCTGCAG                         GGATTCTTACCACCAGATGAAGTTCATATTTTTGGCTATGCAAGGACAAAA
genomic: ATCTTGCTAAGAAGAAGACATTTCCTGCACTTTTCCACCTATACCTGCAGgtaaagcaga ... ttgtttgcagGGATTCTTACCACCAGATGAAGTTCATATTTTTGGCTATGCAAGGACAAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttattatttttcttaaagcaactgtttccaacatttgccttctttgtttgcagGGATTCTTACCACCAGATGAAGTTCATATTTTTGGCTATGCAAGGACAAAAATCTCTGATGATGAATTGAGAAACCGGTTGCGCGG
                                   tttgccttctttgttt  CT-rich tract
     ttatttttcttaaa  TA-rich tract