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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcagtactctctccacgattttcaatttcttcctttgctttcgctgagttgtaattgcattatttctgacatgaatgttctatgaggttcttcttttgttgctcttaggttgtctcatttgctatacaattgattgccgtttgatagtaacttgtcttgcagTTTCGTACGCACAAGATAATATACAGGCGATATGCTGGGTTGTTTTTCTCAATCTGTGTTGATATCACTGATAATGAGTTGGCGTATTTAGAGTGCATCC

Basic information

species Glycine max
transcript GLYMA14G40430.2
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA14G40430.2 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os12g10560.1 (Oryza sativa), 3'ss of exon 3
gtcagtactctctccacgattttcaatttcttcctttgctttcgctgagttgtaattgcattatttctgacatgaatgttctatgaggttcttcttttgttgctcttaggttgtctcatttgctatacaattgattgccgtttgatagtaacttgtcttgcagTTTCGTACGCACAAGATAATATACAGGCGATATGCTGGGTTGTTTTTCTCAATCTGTGTTGATATCACTGATAATGAGTTGGCGTATTTAGAGTGCATCC
                                                            ||     |  ||| ||  ||| |   | | |||||        |||| |||  | |      |  || | |   || |  | ||||| |    | || ||||||| || ||||| ||  | ||||||||||||||||| ||  ||||||||||||| ||||| ||||||||||| ||||||||||| || || || |||||||
----------------------------------------------------------tgttgggagtatcatcaagtttcaaaatgttacttctgacagcagtctttggt-atatgggaatcagtatattcactttctttgtgataat----tttcatgcagTTCCGGACGCATAAAGTTATATACAGGCGATATGCAGGACTGTTTTTCTCAATGTGTGTGGATATCACTGACAATGAGTTGGCATACTTGGAATGCATCC

upper sequence: GLYMA14G40430.2 (Glycine max), 3'ss of exon 3
lower sequence: AC195874.2_FGT002 (Zea mays), 3'ss of exon 3
gtcagtactctctccacgattttcaatttcttcctttgctttcgctgagttgtaattgcattatttctgacatgaatgttctatgaggttcttcttttgttgctcttaggttgtctcatttgctatacaattgattgccgtttgatagtaacttgtcttgcagTTTCGTACGCACAAGATAATATACAGGCGATATGCTGGGTTGTTTTTCTCAATCTGTGTTGATATCACTGATAATGAGTTGGCGTATTTAGAGTGCATCC
                                                              || | |   || | ||  | ||| ||  ||         | ||| |  |  ||| |||   |  ||  ||| |     | ||  | |   || |  |||||||||| || |||||  | || |||||| ||||||||||  ||||||| ||||| ||||| || || ||||||||||| ||||| || || || ||||| |
------------------------------------------------------------aaatatttattattattggaccatgtggacctaaccactgagttctgaattcttct-attactttgacttttggtactaatctgtaatt--tttcttatgcagTTTCGCACACACAAAGTTATCTACAGGAGATATGCTGGACTGTTTTTTTCAATATGTGTGGACATAACTGATAATGAATTGGCATACTTGGAATGCATTC

upper sequence: GLYMA14G40430.2 (Glycine max), 3'ss of exon 3
lower sequence: AT1G47830.1 (Arabidopsis thaliana), 3'ss of exon 3
gtcagtactctctccacgattttcaatttcttcctttgctttcgctgagttgtaattgcattatttctgacatgaatgttctatgaggttcttcttttgttgctcttaggttgtctcatttgctatacaattgattgccgtttgatagtaacttgtcttgcagTTTCGTACGCACAAGATAATATACAGGCGATATGCTGGGTTGTTTTTCTCAATCTGTGTTGATATCACTGATAATGAGTTGGCGTATTTAGAGTGCATCC
                                                  ||| ||||           |||  ||| |   ||| | || |   |  || | | | |  ||||     ||  | ||  | |||| |    |   | | ||||    || |||||| | || |||||| | ||||||||||| |||||||| |||||||||||  | || || ||||| || || ||||||||||| || || ||| | ||||
--------------------------------------------------tgtgattgaga-------aacaataatatggaatgcg-ttttatgtgagtgggtgtca--ttgtgaatgttaatgtatgaatgat-gaaactgttttgcaact--attttcagTTTAGAACACACAAGGTGATATACAGGCGTTATGCTGGATTGTTTTTCTCTGTGTGCGTGGATATAACCGACAATGAGTTGGCTTACTTGGAGAGTATCC

upper sequence: GLYMA14G40430.2 (Glycine max), 3'ss of exon 3
lower sequence: Vv04s0023g03340.t01 (Vitis vinifera), 3'ss of exon 3
gtcagtactctctccacgattttcaatttcttcctttgctttcgctgagttgtaattgcattatttctgacatgaatgttctatgaggttcttcttttgttgctcttaggttgtctcatttgctatacaattgattgccgtttgatagtaacttgtcttgcagTTTCGTACGCACAAGATAATATACAGGCGATATGCTGGGTTGTTTTTCTCAATCTGTGTTGATATCACTGATAATGAGTTGGCGTATTTAGAGTGCATCC
                                               || | ||   |||     ||     ||| | || ||| |  |  || | | |  ||| |          ||||    ||  | |   | |  | ||     ||| ||  ||| ||||| ||||| |||||| | || ||||||||||||||||| ||||| |||||| | |||||||||||||||||||||||||| || ||||| ||||||||||
-----------------------------------------------agatttaga-gcagggggtcctttgtgactattttattaaatcattgtgtagcagctgtc---------cattgagcatg-attaagtaggagatt-----taattttcctttcagTTCCGTACACACAAGGTCATCTACAGGCGATATGCTGGATTGTTCTTCTCATTGTGTGTTGATATCACTGATAATGAGTTAGCATATTTGGAGTGCATCC

upper sequence: GLYMA14G40430.2 (Glycine max), 3'ss of exon 3
lower sequence: Vv18s0001g14240.t01 (Vitis vinifera), 3'ss of exon 4
gtcagtactctctccacgattttcaatttcttcctttgctttcgctgagttgtaattgcattatttctgacatgaatgttctatgaggttcttcttttgttgctcttaggttgtctcatttgctatacaattgattgccgtttgatagtaacttgtcttgcagTTTCGTACGCACAAGATAATATACAGGCGATATGCTGGGTTGTTTTTCTCAATCTGTGTTGATATCACTGATAATGAGTTGGCGTATTTAGAGTGCATCC
                                                         |||  |||  |  ||  | | || ||| |  ||   ||||   ||||     ||| ||| ||| | |  |    |||||     |   ||  || || |||||||||| ||||| |||||| |||| ||||||||||||||||| || ||||||||| | ||||||||||| || |||||||||||||| ||||||||||||||||
------------------------------------------------------ccagcacaattattatca--attattttataacattac-ctttacatgct-----gttctct-attggattaagggctgattatacctgattataaatttttcttgcagTTCCGTACACACAAGGTAATCTACAGGCGATATGCTGGATTATTTTTCTCACTGTGTGTTGATATGACAGATAATGAGTTGGCATATTTAGAGTGCATCC

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|6846408|gb|AW348698.1|AW348698
EST:     TTCACCGCCTCGTCGTAAACAGAGACCCTAAATACACAAATTTCGTCGAG                         TTTCGTACGCACAAGATAATATACAGGCGATATGCTGGGTTGTTTTTCTCA
genomic: TTCACCGCCTCGTCGTAAACAGAGACCCTAAATACACAAATTTCGTCGAGgtcagtactc ... tgtcttgcagTTTCGTACGCACAAGATAATATACAGGCGATATGCTGGGTTGTTTTTCTCA
EST: gi|58022169|gb|CX708910.1|CX708910
EST:     TTCACCGCCTCGTCGTAAACAGAGACCCTAAATACACAAATTTCGTCGAG                         TTTCGTACGCACAAGATAATATACAGGCGATATGCTGGGTTGTTTTTCTCA
genomic: TTCACCGCCTCGTCGTAAACAGAGACCCTAAATACACAAATTTCGTCGAGgtcagtactc ... tgtcttgcagTTTCGTACGCACAAGATAATATACAGGCGATATGCTGGGTTGTTTTTCTCA
EST: gi|298170111|gb|HO018735.1|HO018735
EST:     TTCACCGCCTCGTCGTAAACAGAGACCCTAAATACACAAATTTCGTCGAG                         TTTCGTACGCACAAGATAATATACAGGCGATATGCTGGGTTGTTTTTCTCA
genomic: TTCACCGCCTCGTCGTAAACAGAGACCCTAAATACACAAATTTCGTCGAGgtcagtactc ... tgtcttgcagTTTCGTACGCACAAGATAATATACAGGCGATATGCTGGGTTGTTTTTCTCA
EST: gi|4297809|gb|AI442671.1|AI442671
EST:     TTCACCGCCTCGTCGTAAACAGAGACCCTAAATACACAAATTTCGTCGAG                         TTTCGTACGCACAAGATAATATACAGGCGATATGCTGGGT-GTTTTTCTCA
genomic: TTCACCGCCTCGTCGTAAACAGAGACCCTAAATACACAAATTTCGTCGAGgtcagtactc ... tgtcttgcagTTTCGTACGCACAAGATAATATACAGGCGATATGCTGGGTTGTTTTTCTCA
EST: gi|33388323|gb|CA851530.1|CA851530
EST:     TTCACCGCCTCGTCGTAAACAGAGACCCTAAATACACAAATTTCGTCGAG                         TTTCGTACGCACAAGATAATATACAGGCGATATGCTGGGTTGTTTTTCTCA
genomic: TTCACCGCCTCGTCGTAAACAGAGACCCTAAATACACAAATTTCGTCGAGgtcagtactc ... tgtcttgcagTTTCGTACGCACAAGATAATATACAGGCGATATGCTGGGTTGTTTTTCTCA
EST: gi|15661937|gb|BI699308.1|BI699308
EST:     TTCACCGCCTCGTCGTAAACAGAGACCCTAAATACACAAATTTCGTCGAG                         TTTCGTACGCACAAGATAATATACAGGCGATATGCTGGGTTGTTTTTCTCA
genomic: TTCACCGCCTCGTCGTAAACAGAGACCCTAAATACACAAATTTCGTCGAGgtcagtactc ... tgtcttgcagTTTCGTACGCACAAGATAATATACAGGCGATATGCTGGGTTGTTTTTCTCA
EST: gi|58022417|gb|CX709158.1|CX709158
EST:     TTCACCGCCTCGTCGTAAACAGAGACCCTAAATACACAAATTTCGTCGAG                         TTTCGTACGCACAAGATAATATACAGGCGATATGCTGGGTTGTTTTTCTCA
genomic: TTCACCGCCTCGTCGTAAACAGAGACCCTAAATACACAAATTTCGTCGAGgtcagtactc ... tgtcttgcagTTTCGTACGCACAAGATAATATACAGGCGATATGCTGGGTTGTTTTTCTCA
EST: gi|33388305|gb|CA851512.1|CA851512
EST:     TTCACCGCCTCGTCGTNGGNAGAGACCCTAAATACACAAATTTCGTCGAG                         TTTCGTACGCACAAGATAATATACAGGCGATATGCTGGGTTGTTTTTCTCA
genomic: TTCACCGCCTCGTCGTAAACAGAGACCCTAAATACACAAATTTCGTCGAGgtcagtactc ... tgtcttgcagTTTCGTACGCACAAGATAATATACAGGCGATATGCTGGGTTGTTTTTCTCA
EST: gi|9258866|gb|BE347013.1|BE347013
EST:     TTCACCGCCTCGTCGTAAACAGAGACCCTAAATACACAAATTTCGTCGAG                         TTTCGTACGCACAAGATAATATACAGGCGATATGCTGGGTTGTTTTTCTCA
genomic: TTCACCGCCTCGTCGTAAACAGAGACCCTAAATACACAAATTTCGTCGAGgtcagtactc ... tgtcttgcagTTTCGTACGCACAAGATAATATACAGGCGATATGCTGGGTTGTTTTTCTCA
EST: gi|151399436|gb|EV269307.1|EV269307
EST:     TTCACCGCCTCGTCGTAAACAGAGACCCTAAATACACAAATTTCGTCGAG                         TTTCGTACGCACAAGATAATATACAGGCGATATGCTGGGTTGTTTTTCTCA
genomic: TTCACCGCCTCGTCGTAAACAGAGACCCTAAATACACAAATTTCGTCGAGgtcagtactc ... tgtcttgcagTTTCGTACGCACAAGATAATATACAGGCGATATGCTGGGTTGTTTTTCTCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggttgtctcatttgctatacaattgattgccgtttgatagtaacttgtcttgcagTTTCGTACGCACAAGATAATATACAGGCGATATGCTGGGTTGTTTTTCTCAATCTGTGTTGATATCACTGATAATGAGTTGGCGTATTTAGAGTGCATCC
                                     tagtaac  putative branch site (score: 1)
                                           cttgtctt  CT-rich tract
               tatacaatt  TA-rich tract