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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGTGGTTGAAGTCACTGGAGCTCCTGGGACACTTTACGCTAACGAGACCTACCAGCTTCAGGTCGATTTTCCTGAGAATTACCCGATGGAAGCTCCTCAGgttcttcttttgtccctttcatacataaatttgtaccgacttttggttttcagtgatgttattcttctgttatccacggttttgcag

Basic information

species Glycine max
transcript GLYMA01G37480.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA01G37480.1 (Glycine max), 5'ss of exon 3
lower sequence: AT1G45050.1 (Arabidopsis thaliana), 5'ss of exon 3
GGTGGTTGAAGTCACTGGAGCTCCTGGGACACTTTACGCTAACGAGACCTACCAGCTTCAGGTCGATTTTCCTGAGAATTACCCGATGGAAGCTCCTCAGgt---tcttcttttgtccctttcatacataaa--tttgtaccgacttttggttttcagt-gatgtta----ttcttctgttatccacg-gttttgcag--
|    | || || || |||||||| ||||||||||||||||| ||||| || ||||||||||| || ||||||||  ||||||| |||||||| || ||||    | || |||| |  || | || | | |   |||| | | |  | || | ||  || | | ||      ||||  |||  | |   || |  ||   
GACAATAGATGTTACCGGAGCTCCAGGGACACTTTACGCTAATGAGACTTATCAGCTTCAGGTTGAATTTCCTGAACATTACCCTATGGAAGCACCCCAGgcaagttttgttttttttctctgattcgtgagattttgaatcaaactgtgttcttttgttggttttggtgtctctttggttggctagaagtctctcactg
















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:     ACCAGCTTCAGGTCGATTTTCCTGAGAATTACCCGATGGAAGCTCCTCAG                         GTGATATTCTTGCATCCGGCTCCGCTGCATCCCCATATCTACAGTAACGGC
genomic: ACCAGCTTCAGGTCGATTTTCCTGAGAATTACCCGATGGAAGCTCCTCAGgttcttcttt ... ggttttgcagGTGATATTCTTGCATCCGGCTCCGCTGCATCCCCATATCTACAGTAACGGC
EST: gi|31469425|gb|CD411453.1|CD411453
EST:     ACCAGCTTCAGGTCGATTTTCCTGAGAATTACCCGATGGAAGCTCCTCAG                         GTGATATTCTTGCATCCGGCTCCGCTGCATCCCCATATCTACAGTAACGGT
genomic: ACCAGCTTCAGGTCGATTTTCCTGAGAATTACCCGATGGAAGCTCCTCAGgttcttcttt ... ggttttgcagGTGATATTCTTGCATCCGGCTCCGCTGCATCCCCATATCTACAGTAACGGC
EST: gi|15664810|gb|BI702173.1|BI702173
EST:     ACCAGCTTCAGGTCGATTTTCCTGAGAATTACCCGATGGAAGCTCCTCAG                         GTGATATTCTTGCATCCGGCTCCGCTGCATCCCCATATCTACAGTAACGGC
genomic: ACCAGCTTCAGGTCGATTTTCCTGAGAATTACCCGATGGAAGCTCCTCAGgttcttcttt ... ggttttgcagGTGATATTCTTGCATCCGGCTCCGCTGCATCCCCATATCTACAGTAACGGC
EST: gi|10844680|gb|BF067906.1|BF067906
EST:     ACCAGCTTCAGGTCGATTTTCCTGAGAATTACCCGATGGAAGCTCCTCAG                         GTGATATTCTTGCATCCGGCTCCGCTGCATCCCCATATCTACAGTAACGGC
genomic: ACCAGCTTCAGGTCGATTTTCCTGAGAATTACCCGATGGAAGCTCCTCAGgttcttcttt ... ggttttgcagGTGATATTCTTGCATCCGGCTCCGCTGCATCCCCATATCTACAGTAACGGC
EST: gi|9204241|gb|BE330465.1|BE330465
EST:     ACCAGCTTCAGGTTGATTTTCCTGAGAATTACCCAATGGAGGCTCCTCAG                         GTGATATTCTTGCATCCGGCTCCGCTGCATCCCCATATCTACAGTAACGGC
genomic: ACCAGCTTCAGGTCGATTTTCCTGAGAATTACCCGATGGAAGCTCCTCAGgttcttcttt ... ggttttgcagGTGATATTCTTGCATCCGGCTCCGCTGCATCCCCATATCTACAGTAACGGC
EST: gi|37994961|gb|CF806550.1|CF806550
EST:     ACCAGCTTCAGGTCGATTTTCCTGAGAATTACCCGATGGAAGCTCCTCAG                         GTGATATTCTTGCATCCGGCTCCGCTGCATCCCCATATCTACAGTAACGGC
genomic: ACCAGCTTCAGGTCGATTTTCCTGAGAATTACCCGATGGAAGCTCCTCAGgttcttcttt ... ggttttgcagGTGATATTCTTGCATCCGGCTCCGCTGCATCCCCATATCTACAGTAACGGC
EST: gi|209703743|gb|BW656876.1|BW656876
EST:     ACCAGCTTCAGGTCGATTTTCCTGAGAATTACCCGATGGAAGCTCCTCAG                         GTGATATTCTTGCATCCGGCTCCGCTGCATCCCCATATCTACAGTAACGGC
genomic: ACCAGCTTCAGGTCGATTTTCCTGAGAATTACCCGATGGAAGCTCCTCAGgttcttcttt ... ggttttgcagGTGATATTCTTGCATCCGGCTCCGCTGCATCCCCATATCTACAGTAACGGC
EST: gi|20813177|gb|BQ297655.1|BQ297655
EST:     ACCAGCTTCAGGTCGATTTTCCTGAGAATTACCCGATGGAAGCTCCTCAG                         GTGATATTCTTGCATCCGGCTCCGCTGCATCCCCATATCTACAGTAACGGC
genomic: ACCAGCTTCAGGTCGATTTTCCTGAGAATTACCCGATGGAAGCTCCTCAGgttcttcttt ... ggttttgcagGTGATATTCTTGCATCCGGCTCCGCTGCATCCCCATATCTACAGTAACGGC
EST: gi|27445947|gb|CA953070.1|CA953070
EST:     ACCAGCTTCAGGTCGATTTTCCTGAGAATTACCCGATGGAAGCTCCTCAG                         GTGATATTCTTGCATCCGGCTCCGCTGCATCCCCATATCTACAGTAACGGC
genomic: ACCAGCTTCAGGTCGATTTTCCTGAGAATTACCCGATGGAAGCTCCTCAGgttcttcttt ... ggttttgcagGTGATATTCTTGCATCCGGCTCCGCTGCATCCCCATATCTACAGTAACGGC
EST: gi|37996938|gb|CF808527.1|CF808527
EST:     ACCAGCTTCAGGTCGATTTTCCTGAGAATTACCCGATGGAAGCTCCTCAG                         GTGATATTCTTGCATCCGGCTCCGCTGCATCCCCATATCTACAGTAACGGC
genomic: ACCAGCTTCAGGTCGATTTTCCTGAGAATTACCCGATGGAAGCTCCTCAGgttcttcttt ... ggttttgcagGTGATATTCTTGCATCCGGCTCCGCTGCATCCCCATATCTACAGTAACGGC

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGTGGTTGAAGTCACTGGAGCTCCTGGGACACTTTACGCTAACGAGACCTACCAGCTTCAGGTCGATTTTCCTGAGAATTACCCGATGGAAGCTCCTCAGgttcttcttttgtccctttcatacataaatttgtaccgacttttggttttcagtgatgttattcttctgttatccacggttttgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC