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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgtatccgtcgcaacctactgttccattttcccctgttttctttcataactaagtgattctattttctttatttactctcttcagGTGTGGGAGAAGAGTGGGTACAATACCGTTGAGTGGGTTCGTTACATTACAAAAGCAGGATCCTACGAGATTAGGTGCTAGACACAATTGGTATTTTGCT

Basic information

species Glycine max
transcript GLYMA17G16630.2
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA17G16630.3 (Glycine max), 3'ss of exon 11
lower sequence: AT5G46630.1 (Arabidopsis thaliana), 3'ss of exon 12
gtacgtatccgtcgca-acctactgttccattttcccctgttttctttcataactaagtg--attctattttcttta--tttactctctt----------cagGTGTGGGAGAAGAGTGGGTACAATACCGTTGAGTGGGTTCGTTACATTACAAAAGCAGGATCCTACGAGATTAGGTGCTAGACACAATTGGTATTTTGCT
   | | |  ||      | |  || |  || |  | ||| | | ||  | || | | ||  || ||| ||| ||     | ||| ||            ||||| ||||||||||| || ||||| || || ||||||||||| ||||| || ||||| ||||| |||||||| || ||||  |||  |     | ||    
--tcttttatgtgatttgcgttttggttaatctgtctctggtct-ttcaaaaattgattgctatactacttttttggacctgactatccggaacgattggcagGTTTGGGAGAAGAGCGGTTACAACACGGTCGAGTGGGTTCGATACATAACGAAAGCGGGATCTTACGAGATCAGATGCTGAACATTAAACACAGTTCAGG

upper sequence: GLYMA17G16630.3 (Glycine max), 3'ss of exon 11
lower sequence: PP1S197_28V6.1 (Physcomitrella patens), 3'ss of exon 11
---------------gtacgtatc-cgtcgcaacctactgttccattttcccctgttttctttcataactaagtgattctattttctttat-----ttactctcttcagGTGTGGGAGAAGAGTGGGTACAATACCGTTGAGTGGGTTCGTTACATTACAAAAGCAGGATCCTACGAGATTAGGTGCTAGACACAATTGGTATTTTGCT
               ||| || |    |||||   ||   |      | | | ||    ||    |    |||| | | | |  | ||  |      |  ||| ||||||| |||||||||||||| ||||| || ||||| ||||| || ||||| ||||  || || || || || ||  ||||||                     
gtgggttccttctccgtatgtgtaatatcgcatgatagcttcaatggtgcacatgcagactggattttgcaagtaactttctcatgttcgtagctgcttatctgttcagGTATGGGAGAAGAGTGGTTACAACACTGTTGAATGGGTGCGCTACATCACAAGGGCCGGTTCTTATGAAATCCGGTGCTGA-------------------
















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|254325028|gb|GR834453.1|GR834453
EST:     GTTCCCATGTTCACAGCATCTGGTTTACGTGTCCGTTTCCTCAAG                         GTGTGGGAGAAGAGTGGGTACAATACCGTTGAGTGGGTTCGTTACATTACA
genomic: GTTCCCATGTTCACAGCATCTGGTTTACGTGTCCGTTTCCTCAAGgtacgtatcc ... ctctcttcagGTGTGGGAGAAGAGTGGGTACAATACCGTTGAGTGGGTTCGTTACATTACA
EST: gi|254325029|gb|GR834454.1|GR834454
EST:     GTTCCCATGTTCACAGCATCTGGTTTACGTGTCCGTTTCCTCAAG                         GTGTGGGAGAAGAGTGGGTACAATACCGTTGAGTGGGTTCGTTACATTACA
genomic: GTTCCCATGTTCACAGCATCTGGTTTACGTGTCCGTTTCCTCAAGgtacgtatcc ... ctctcttcagGTGTGGGAGAAGAGTGGGTACAATACCGTTGAGTGGGTTCGTTACATTACA
EST: gi|193382059|gb|FK345746.1|FK345746
EST:     GTTCCCATGTTCACAGCATCTGGTTTACGTGTCCGTTTCCTCAAG                         GTGTGGGAGAAGAGTGGGTACAATACCGTTGAGTGGGTTCGTTACA
genomic: GTTCCCATGTTCACAGCATCTGGTTTACGTGTCCGTTTCCTCAAGgtacgtatcc ... ctctcttcagGTGTGGGAGAAGAGTGGGTACAATACCGTTGAGTGGGTTCGTTACA
EST: gi|37996956|gb|CF808545.1|CF808545
EST:     GTTCCCATGTTCACAGCATCTGGTTTACGTGTCCGTTTCCTCAAG                         GTGTGGGAGAAGAGTGGGTACAATACCGTTGAGTGGGTTCGTTACATTACA
genomic: GTTCCCATGTTCACAGCATCTGGTTTACGTGTCCGTTTCCTCAAGgtacgtatcc ... ctctcttcagGTGTGGGAGAAGAGTGGGTACAATACCGTTGAGTGGGTTCGTTACATTACA
EST: gi|254315557|gb|GR825366.1|GR825366
EST:     GTTCCCATGTTCACAGCATCTGGTTTACGTGTCCGTTTCCTCAAG                         GTGTGGGAGAAGAGTGGGTACAATACCGTTGAGTGGGTTCGTTACATTACA
genomic: GTTCCCATGTTCACAGCATCTGGTTTACGTGTCCGTTTCCTCAAGgtacgtatcc ... ctctcttcagGTGTGGGAGAAGAGTGGGTACAATACCGTTGAGTGGGTTCGTTACATTACA
EST: gi|254322718|gb|GR835540.1|GR835540
EST:     GTTCCCATGTTCACAGCATCTGGTTTACGTGTCCGTTTCCTCAAG                         GTGTGGGAGAAGAGTGGGTACAATACCGTTGAGTGGGTTCGTTACATTACA
genomic: GTTCCCATGTTCACAGCATCTGGTTTACGTGTCCGTTTCCTCAAGgtacgtatcc ... ctctcttcagGTGTGGGAGAAGAGTGGGTACAATACCGTTGAGTGGGTTCGTTACATTACA
EST: gi|5606842|gb|AI900940.1|AI900940
EST:     GTTCCCATGTTCACAGCATCTGGTTTACGTGTCCGTTTCCTCAAG                         GTGTGGGAGAAGAGTGGGTACAATACCGTTGAGTGGGTTCGTTACATTACA
genomic: GTTCCCATGTTCACAGCATCTGGTTTACGTGTCCGTTTCCTCAAGgtacgtatcc ... ctctcttcagGTGTGGGAGAAGAGTGGGTACAATACCGTTGAGTGGGTTCGTTACATTACA
EST: gi|207734392|gb|GD710102.1|GD710102
EST:     GTTCCCATGTTCACAGCATCTGGTTTACGTGTCCGTTTCCTCAAG                         GTGTGGGAGAAGAGTGGGTACAATACCGTTGAGTGGGTTCGTTACATTACA
genomic: GTTCCCATGTTCACAGCATCTGGTTTACGTGTCCGTTTCCTCAAGgtacgtatcc ... ctctcttcagGTGTGGGAGAAGAGTGGGTACAATACCGTTGAGTGGGTTCGTTACATTACA
EST: gi|19346229|gb|BM891109.1|BM891109
EST:     GTTCCCATGTTCACAGCATCTGGTTTACGTGTCCGTTTCCTCAAG                         GTGTGGGAGAAGAGTGGGTACAATACCGTTGAGTGGGTTCGTTACATTACA
genomic: GTTCCCATGTTCACAGCATCTGGTTTACGTGTCCGTTTCCTCAAGgtacgtatcc ... ctctcttcagGTGTGGGAGAAGAGTGGGTACAATACCGTTGAGTGGGTTCGTTACATTACA
EST: gi|209699280|gb|BW670242.1|BW670242
EST:     GTTCCCATGTTCACAGCATCTGGTTTACGTGTCCGTTTCCTCAAG                         GTGTGGGAGAAGAGTGGGTACAATACCGTTGAGTGGGTTCGTTACATTACA
genomic: GTTCCCATGTTCACAGCATCTGGTTTACGTGTCCGTTTCCTCAAGgtacgtatcc ... ctctcttcagGTGTGGGAGAAGAGTGGGTACAATACCGTTGAGTGGGTTCGTTACATTACA
EST: gi|16342565|gb|BI968160.1|BI968160
EST:     GTTCCCATGTTCACAGCATCTGGTTTACGTGTCCGTTTCCTCAAG                         GTGTGGGAGAAGAGTGGGTACAATACCGTTGAGTGGGTTCGTTACATTACA
genomic: GTTCCCATGTTCACAGCATCTGGTTTACGTGTCCGTTTCCTCAAGgtacgtatcc ... ctctcttcagGTGTGGGAGAAGAGTGGGTACAATACCGTTGAGTGGGTTCGTTACATTACA
EST: gi|58021602|gb|CX708343.1|CX708343
EST:     GTTCCCATGTTCACAGCATCTGGTTTACGTGTCCGTTTCCTCAAG                         GTGTGGGAGAAGAGTGGGTACAATACCGTTGAGTGGGTTCGTTACATTACA
genomic: GTTCCCATGTTCACAGCATCTGGTTTACGTGTCCGTTTCCTCAAGgtacgtatcc ... ctctcttcagGTGTGGGAGAAGAGTGGGTACAATACCGTTGAGTGGGTTCGTTACATTACA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cccctgttttctttcataactaagtgattctattttctttatttactctcttcagGTGTGGGAGAAGAGTGGGTACAATACCGTTGAGTGGGTTCGTTACATTACAAAAGCAGGATCCTACGAGATTAGGTGCTAGACACAATTGGTATTTTGCT
             tcataac  putative branch site (score: 2)
                           ttctattttctttatt  putative PPT
                        tgattctattttcttt  TA-rich tract