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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagccctaaaacctaactcactctctccttcgatcctccctctctgcttgttcattcgtttcttaggttgaattgggattttatttgatgatgatgatgaatgtttcagAATCTGAGTAAGATTGCCTGCAATAGGCTCCAGAAAGAGCTCGTGGAGTGGCAGGTCAATCCCCCAACTGGTTTCAAGCACAAAGTCACCGACAATCTCC

Basic information

species Glycine max
transcript GLYMA01G37480.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA01G37480.1 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os03g47770.1 (Oryza sativa), 3'ss of exon 1
---------------------------------------gttagccctaaaacctaactcactctctccttcgatcctccctc-tctgcttgttcattcgtttcttaggttgaattgggattttatttgatgatgatgatgaatgtttcagAATCTGAGTAAGATTGCCTGCAATAGGCTCCAGAAAGAGCTCGTGGAGTGGCAGGTCAATCCCCCAACTGGTTTCAAGCACAAAGTCACCGACAATCTCC
                                        |   | |   | || | ||| | |||  |  |||| | || |  | || ||      |  |||  |   |     || | | ||  |   ||   |||     |  | |||   ||||| ||||| || |||||  |||| ||||| ||||||| ||||||||||||||| || ||  | || ||||||||||| ||||||||||||||||
gtaccaaaccctaaccctaaccccctcctctctaccctcatcccctccggatcccatctc-ccctccgccccgattcgccgtaatttgttttgggggtttttttctctctctctctgagctgtttgtgtgtgtgtatgtgtgttcgtgcagGTGCTGAGCAAGATCGCGTGCAACCGGCTGCAGAAGGAGCTCGCGGAGTGGCAGGTCAACCCTCCCTCCGGCTTCAAGCACAAGGTCACCGACAATCTCC
















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|209697785|gb|BW663924.1|BW663924
EST:     CGTGTACCCGCAAAAGAATCATGACGAGTTCCTCTGCTGCCGCTCGCAAG                         AATCTGAGTAAGATTGCCTGCAATAGGCTCCAGAAAGAGCTCGTGGAGTGG
genomic: CGTGTACCCGCAAAAGAATCATGACGAGTTCCTCTGCTGCCGCTCGCAAGgttagcccta ... aatgtttcagAATCTGAGTAAGATTGCCTGCAATAGGCTCCAGAAAGAGCTCGTGGAGTGG
EST: gi|15664810|gb|BI702173.1|BI702173
EST:     CGTGTACCCGCAAAAGAATCATGACGAGTTCCTCTGCTGCCGCTCGCAAG                         AATCTGAGTAAGATTGCCTGCAATAGGCTCCAGAAAGAGCTCGTGGAGTGG
genomic: CGTGTACCCGCAAAAGAATCATGACGAGTTCCTCTGCTGCCGCTCGCAAGgttagcccta ... aatgtttcagAATCTGAGTAAGATTGCCTGCAATAGGCTCCAGAAAGAGCTCGTGGAGTGG
EST: gi|9204241|gb|BE330465.1|BE330465
EST:     CGTGTACGCGCAAAAGAATCATGACGAGTTCCTCTGCTGCCGCTCGCAAG                         AATCTGAGTAAGATTGCCTGCAATAGGCTCCAGAAAGAGCTCGTGGAGTGG
genomic: CGTGTACCCGCAAAAGAATCATGACGAGTTCCTCTGCTGCCGCTCGCAAGgttagcccta ... aatgtttcagAATCTGAGTAAGATTGCCTGCAATAGGCTCCAGAAAGAGCTCGTGGAGTGG
EST: gi|209703743|gb|BW656876.1|BW656876
EST:     CGTGTACCCGCAAAAGAATCATGACGAGTTCCTCTGCTGCCGCTCGCAAG                         AATCTGAGTAAGATTGCCTGCAATAGGCTCCAGAAAGAGCTCGTGGAGTGG
genomic: CGTGTACCCGCAAAAGAATCATGACGAGTTCCTCTGCTGCCGCTCGCAAGgttagcccta ... aatgtttcagAATCTGAGTAAGATTGCCTGCAATAGGCTCCAGAAAGAGCTCGTGGAGTGG
EST: gi|20813177|gb|BQ297655.1|BQ297655
EST:     CGTGTACCCGCAAAAGAATCATGACGAGTTCCTCTGCTGCCGCTCGCAAG                         AATCTGAGTAAGATTGCCTGCAATAGGCTCCAGAAAGAGCTCGTGGAGTGG
genomic: CGTGTACCCGCAAAAGAATCATGACGAGTTCCTCTGCTGCCGCTCGCAAGgttagcccta ... aatgtttcagAATCTGAGTAAGATTGCCTGCAATAGGCTCCAGAAAGAGCTCGTGGAGTGG
EST: gi|27445947|gb|CA953070.1|CA953070
EST:     CGTGTACCCGCAAAAGAATCATGACGAGTTCCTCTGCTGCCGCTCGCAAG                         AATCTGAGTAAGATTGCCTGCAATAGGCTCCAGAAAGAGCTCGTGGAGTGG
genomic: CGTGTACCCGCAAAAGAATCATGACGAGTTCCTCTGCTGCCGCTCGCAAGgttagcccta ... aatgtttcagAATCTGAGTAAGATTGCCTGCAATAGGCTCCAGAAAGAGCTCGTGGAGTGG
EST: gi|37996938|gb|CF808527.1|CF808527
EST:     CGTGTACCCGCAAAAGAATCATGACGAGTTCCTCTGCTGCCGCTCGCAAG                         AATCTGAGTAAGATTGCCTGCAATAGGCTCCAGAAAGAGCTCGTGGAGTGG
genomic: CGTGTACCCGCAAAAGAATCATGACGAGTTCCTCTGCTGCCGCTCGCAAGgttagcccta ... aatgtttcagAATCTGAGTAAGATTGCCTGCAATAGGCTCCAGAAAGAGCTCGTGGAGTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcgtttcttaggttgaattgggattttatttgatgatgatgatgaatgtttcagAATCTGAGTAAGATTGCCTGCAATAGGCTCCAGAAAGAGCTCGTGGAGTGGCAGGTCAATCCCCCAACTGGTTTCAAGCACAAAGTCACCGACAATCTCC
                            atttgat  putative branch site (score: 5)
                       attttatttgatgat  TA-rich tract