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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TATCCAAGTTCTTGGTAATGAGAAGGCCAGCAAGGAAGTATTCAACATCTCGGGAGAGAAGTATGTCACGTTTGACGGATTAGCAAGAGCATGTGCTAAGgtaagtcattcttgccttgtcatatttaaggtgaccaatagagagcagtgggaaaatgccttaataagtgaaacaattaaatttgagacatgtattttagtattgtaatttttgtttgttttggcattttccag

Basic information

species Glycine max
transcript GLYMA19G41540.2
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G41540.2 (Glycine max), 5'ss of exon 8
lower sequence: AT1G09340.1 (Arabidopsis thaliana), 5'ss of exon 8
TATCCAAGTTCTTGGTAATGAGAAGGCCAGCAAGGAAGTATTCAACATCTCGGGAGAGAAGTATGTCACGTTTGACGGATTAGCAAGAGCATGTGCTAAGgtaagtcattcttgccttgtcatatt-taaggtgaccaatagagagcagtgggaaaatgccttaataagtgaaacaattaaatttgaga-catgtattttagtattgtaatttttgtttgttttggcattttccag------------------
| || | || |||||||| ||||| |||||||  ||  |||||||||||||||| ||||| ||||| || ||||| || ||||||| ||| || || ||||||  |  || |    | |   |||| |    | | ||||  | | |  |   |  |   | |  |  |||   |  ||  | | || | |||    |    | ||   ||  ||| |||  |   | | |||  |                  
TCTCAACGTGCTTGGTAACGAGAAAGCCAGCAGAGAGATATTCAACATCTCGGGGGAGAAATATGTTACCTTTGATGGGTTAGCAAAAGCTTGCGCAAAGgtacattcttttctattggctttattgttgtctcatcaatccaaatcgtttcaagtacatcctggt--gtggtccgtttgtaatagatatcatactctgagctttttggatcattgcttgagtaaacttattcatgttttcaactctctctcag
















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|31471080|gb|CD413108.1|CD413108
EST:     CGGGAGAGAAGTATGTCACGTTTGACGGATTAGCAAGAGCATGTGCTAAG                         GCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
genomic: CGGGAGAGAAGTATGTCACGTTTGACGGATTAGCAAGAGCATGTGCTAAGgtaagtcatt ... cattttccagGCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
EST: gi|12489505|gb|BG043027.1|BG043027
EST:     CGGGAGAGAAGTATGTCACGTTTGACGGATTAGCAAGAGCATGTGCTAAG                         GCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
genomic: CGGGAGAGAAGTATGTCACGTTTGACGGATTAGCAAGAGCATGTGCTAAGgtaagtcatt ... cattttccagGCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
EST: gi|209707068|gb|BW653205.1|BW653205
EST:     CGGGAGAGAAGTATGTCACGTTTGACGGATTAGCAAGAGCATGTGCTAAG                         GCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
genomic: CGGGAGAGAAGTATGTCACGTTTGACGGATTAGCAAGAGCATGTGCTAAGgtaagtcatt ... cattttccagGCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
EST: gi|31456487|gb|CD398515.1|CD398515
EST:     CGGGAGAGAAGTATGTCACGTTTGACGGATTAGCAAGAGCATGTGCTAAG                         GCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
genomic: CGGGAGAGAAGTATGTCACGTTTGACGGATTAGCAAGAGCATGTGCTAAGgtaagtcatt ... cattttccagGCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
EST: gi|105632122|gb|DW246321.1|DW246321
EST:     CGGGAGAGAAGTATGTCACGTTTGACGGATTAGCAAGAGCATGTGCTAAG                         GCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
genomic: CGGGAGAGAAGTATGTCACGTTTGACGGATTAGCAAGAGCATGTGCTAAGgtaagtcatt ... cattttccagGCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
EST: gi|31460840|gb|CD402868.1|CD402868
EST:     CGGGAGAGAAGTATGTCACGTTTGACGGATTAGCAAGAGCATGTGCTAAG                         GCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
genomic: CGGGAGAGAAGTATGTCACGTTTGACGGATTAGCAAGAGCATGTGCTAAGgtaagtcatt ... cattttccagGCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
EST: gi|209712201|gb|BW681407.1|BW681407
EST:     CGGGAGAGAAGTATGTCACGTTTGACGGATTAGCAAGAGCATGTGCTAAG                         GCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
genomic: CGGGAGAGAAGTATGTCACGTTTGACGGATTAGCAAGAGCATGTGCTAAGgtaagtcatt ... cattttccagGCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
EST: gi|213615004|gb|DB978381.1|DB978381
EST:     CGGGAGAGAAGTATGTCACGTTTGACGGATTAGCAAGAGCATGTGCTAAG                         GCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
genomic: CGGGAGAGAAGTATGTCACGTTTGACGGATTAGCAAGAGCATGTGCTAAGgtaagtcatt ... cattttccagGCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
EST: gi|9258516|gb|BE346663.1|BE346663
EST:     CGGGAGAGAAGTATGTCACGTTTGACGGATTAGCAAGAGCATGTGCTAAG                         GCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
genomic: CGGGAGAGAAGTATGTCACGTTTGACGGATTAGCAAGAGCATGTGCTAAGgtaagtcatt ... cattttccagGCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
EST: gi|213604080|gb|DB984173.1|DB984173
EST:     CGGGAGAGAAGTATGTCACGTTTGACGGATTAGCAAGAGCATGTGCTAAG                         GCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
genomic: CGGGAGAGAAGTATGTCACGTTTGACGGATTAGCAAGAGCATGTGCTAAGgtaagtcatt ... cattttccagGCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
EST: gi|120492715|gb|EH220882.1|EH220882
EST:     CGGGAGAGAAGTATGTCACGTTTGACGGATTAGCAAGAGCATGTGCTAAG                         GCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
genomic: CGGGAGAGAAGTATGTCACGTTTGACGGATTAGCAAGAGCATGTGCTAAGgtaagtcatt ... cattttccagGCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
EST: gi|31458323|gb|CD400351.1|CD400351
EST:     CGGGAGAGAAGTATGTCACGTTTGACGGATTAGCAAGAGCATGTGCTAAG                         GCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
genomic: CGGGAGAGAAGTATGTCACGTTTGACGGATTAGCAAGAGCATGTGCTAAGgtaagtcatt ... cattttccagGCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
EST: gi|209706966|gb|BW661525.1|BW661525
EST:     CGGGAGAGAAGTATGTCACGTTTGACGGATTAGCAAGAGCATGTGCTAAG                         GCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATCTT
genomic: CGGGAGAGAAGTATGTCACGTTTGACGGATTAGCAAGAGCATGTGCTAAGgtaagtcatt ... cattttccagGCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
EST: gi|31561696|gb|CD487534.1|CD487534
EST:     CGGGAGAGAAGTATGTCACGTTTGACGGATTAGCAAGAGCATGTGCTAAG                         GCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTNAAGATTTT
genomic: CGGGAGAGAAGTATGTCACGTTTGACGGATTAGCAAGAGCATGTGCTAAGgtaagtcatt ... cattttccagGCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
EST: gi|31458290|gb|CD400318.1|CD400318
EST:     CGGGAGAGAAGTATGTCACGTTTGACGGATTAGCAAGAGCATGTGCTAAG                         GCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
genomic: CGGGAGAGAAGTATGTCACGTTTGACGGATTAGCAAGAGCATGTGCTAAGgtaagtcatt ... cattttccagGCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
EST: gi|213606039|gb|DB980191.1|DB980191
EST:     CGGGAGAGAAGTATGTCACGTTTGACGGATTAGCAAGAGCATGTGCTAAG                         GCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
genomic: CGGGAGAGAAGTATGTCACGTTTGACGGATTAGCAAGAGCATGTGCTAAGgtaagtcatt ... cattttccagGCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
EST: gi|120492307|gb|EH220474.1|EH220474
EST:     CGGGAGAGAAGTATGTCACGTTTGACGGATTAGCAAGAGCATGTGCTAAG                         GCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
genomic: CGGGAGAGAAGTATGTCACGTTTGACGGATTAGCAAGAGCATGTGCTAAGgtaagtcatt ... cattttccagGCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
EST: gi|209707444|gb|BW664903.1|BW664903
EST:     CGGGAGAGAAGTATGTCACGTTTGACGGATTAGCAAGAGCATGTGCTAAG                         GCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
genomic: CGGGAGAGAAGTATGTCACGTTTGACGGATTAGCAAGAGCATGTGCTAAGgtaagtcatt ... cattttccagGCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
EST: gi|214009625|gb|DB990274.1|DB990274
EST:     CGGGAGAGAAGTATGTCACGTTTGACGGATTAGCAAGAGCATGTGCTAAG                         GCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
genomic: CGGGAGAGAAGTATGTCACGTTTGACGGATTAGCAAGAGCATGTGCTAAGgtaagtcatt ... cattttccagGCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
EST: gi|209723633|gb|BW682751.1|BW682751
EST:     ACGTTTGACGGATTAGCAAGAGCATGTGCTAAG                         GCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
genomic: ACGTTTGACGGATTAGCAAGAGCATGTGCTAAGgtaagtcatt ... cattttccagGCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
EST: gi|14206121|gb|BG839799.1|BG839799
EST:     CGGGAGAGAAGTATGTCACGTTTGACGGATTAGCAAGAGCATGTGCTAAG                         GCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
genomic: CGGGAGAGAAGTATGTCACGTTTGACGGATTAGCAAGAGCATGTGCTAAGgtaagtcatt ... cattttccagGCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
EST: gi|10231530|gb|BE800418.1|BE800418
EST:     CGGGAGAGAAGTATGTCACGTTTGACGGATTAGCAAGAGCATGTGCTAAG                         GCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
genomic: CGGGAGAGAAGTATGTCACGTTTGACGGATTAGCAAGAGCATGTGCTAAGgtaagtcatt ... cattttccagGCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
EST: gi|31310636|gb|CD395839.1|CD395839
EST:     CGGGAGAGAAGTATGTCACGTTTGACGGATTAGCAAGAGCATGTGCTAAG                         GCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
genomic: CGGGAGAGAAGTATGTCACGTTTGACGGATTAGCAAGAGCATGTGCTAAGgtaagtcatt ... cattttccagGCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
EST: gi|120491996|gb|EH220163.1|EH220163
EST:     CGGGAGAGAAGTATGTCACGTTTGACGGATTAGCAAGAGCATGTGCTAAG                         GCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
genomic: CGGGAGAGAAGTATGTCACGTTTGACGGATTAGCAAGAGCATGTGCTAAGgtaagtcatt ... cattttccagGCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
EST: gi|31460394|gb|CD402362.1|CD402362
EST:     GTCACGTTTGACGGATTAGCAAGAGCATGTGCTAAG                         GCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
genomic: GTCACGTTTGACGGATTAGCAAGAGCATGTGCTAAGgtaagtcatt ... cattttccagGCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
EST: gi|31472147|gb|CD414175.1|CD414175
EST:     CGGGAGAGAAGTATGTCACGTTTGACGGATTAGCAAGAGCATGTGCTAAG                         GCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
genomic: CGGGAGAGAAGTATGTCACGTTTGACGGATTAGCAAGAGCATGTGCTAAGgtaagtcatt ... cattttccagGCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
EST: gi|209719661|gb|BW669220.1|BW669220
EST:     CGGGAGAGAAGTATGTCACGTTTGACGGATTAGCAAGAGCATGTGCTAAG                         GCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
genomic: CGGGAGAGAAGTATGTCACGTTTGACGGATTAGCAAGAGCATGTGCTAAGgtaagtcatt ... cattttccagGCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
EST: gi|14205299|gb|BG838977.1|BG838977
EST:     CGGGAGAGAAGTATGTCACGTTTGACGGATTAGCAAGAGCATGTGCTAAG                         GCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
genomic: CGGGAGAGAAGTATGTCACGTTTGACGGATTAGCAAGAGCATGTGCTAAGgtaagtcatt ... cattttccagGCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
EST: gi|31309610|gb|CD394813.1|CD394813
EST:     CGGGAGAGAAGTATGTCACGTTTGACGGATTAGCAAGAGCATGTGCTAAG                         GCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACTACCCTAAAGATTTT
genomic: CGGGAGAGAAGTATGTCACGTTTGACGGATTAGCAAGAGCATGTGCTAAGgtaagtcatt ... cattttccagGCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
EST: gi|120492078|gb|EH220245.1|EH220245
EST:     CGGGAGAGAAGTATGTCACGTTTGACGGATTAGCAAGAGCATGTGCTAAG                         GCTGGTGGGTTCCCAGAGCCAGAAATCATTCACTACAACCCTAAAGATTTT
genomic: CGGGAGAGAAGTATGTCACGTTTGACGGATTAGCAAGAGCATGTGCTAAGgtaagtcatt ... cattttccagGCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
EST: gi|120492769|gb|EH220936.1|EH220936
EST:     CGGGAGAGAAGTATGTCACGTTTGACGGATTAGCAAGAGCATGTGCTAAG                         GCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
genomic: CGGGAGAGAAGTATGTCACGTTTGACGGATTAGCAAGAGCATGTGCTAAGgtaagtcatt ... cattttccagGCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
EST: gi|120496561|gb|EH224728.1|EH224728
EST:     CGGGAGAGAAGTATGTCACGTTTGACGGATTAGCAAGAGCATGTGCTAAG                         GCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
genomic: CGGGAGAGAAGTATGTCACGTTTGACGGATTAGCAAGAGCATGTGCTAAGgtaagtcatt ... cattttccagGCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
EST: gi|20812427|gb|BQ296905.1|BQ296905
EST:     GTCACGTTTGACGGATTAGCAAGAGCATGTGCTAAG                         GCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
genomic: GTCACGTTTGACGGATTAGCAAGAGCATGTGCTAAGgtaagtcatt ... cattttccagGCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
EST: gi|209696687|gb|BW672891.1|BW672891
EST:     CGGGAGAGAAGTATGTCACGTTTGACGGATTAGCAAGAGCATGTGCTAAG                         GCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT
genomic: CGGGAGAGAAGTATGTCACGTTTGACGGATTAGCAAGAGCATGTGCTAAGgtaagtcatt ... cattttccagGCTGGTGGGTTCCCAGAGCCAGAGATCATTCACTACAACCCTAAAGATTTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TATCCAAGTTCTTGGTAATGAGAAGGCCAGCAAGGAAGTATTCAACATCTCGGGAGAGAAGTATGTCACGTTTGACGGATTAGCAAGAGCATGTGCTAAGgtaagtcattcttgccttgtcatatttaaggtgaccaatagagagcagtgggaaaatgccttaataagtgaaacaattaaatttgagacatgtattttagtattgtaatttttgtttgttttggcattttccag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCA