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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gatcaattgttcttatgtagtcaatataagtgttctgttggtattagttctcattaccgttatattcaatatgacatgggattttcattttggtttgcagCTATACAGCTAGCGAAGTAGATGTTGGTTCTGATAAGTCACCAGAACAGCGTGCCCTGCTTGTGGAATCAAGGAG

Basic information

species Glycine max
transcript GLYMA16G08200.1
intron # 3
splice site 3'
intron type U2

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|6666502|gb|AW277896.1|AW277896
EST:     AGGGAAACAGCGTACACTCCTTTTGTTCCACAAGCAGTCCTTCCTTCGAG                         CTATACAGCTAGCGAAGTAGATGTTGGTTCTGATAAGTCACCAGAACAGCG
genomic: AGGGAAACAGCGTACACTCCTTTTGTTCCACAAGCAGTCCTTCCTTCGAGgtgatttatg ... tggtttgcagCTATACAGCTAGCGAAGTAGATGTTGGTTCTGATAAGTCACCAGAACAGCG
EST: gi|9564950|gb|BE474459.1|BE474459
EST:     AGGGAAACAGCGTACACTCCTTTTGTTCCACAAGCAGTCCTTCCTTCGAG                         CTATACAGCTAGCGAAGTAGATGTTGGTTCTGATAAGTCACCAGAACAGCG
genomic: AGGGAAACAGCGTACACTCCTTTTGTTCCACAAGCAGTCCTTCCTTCGAGgtgatttatg ... tggtttgcagCTATACAGCTAGCGAAGTAGATGTTGGTTCTGATAAGTCACCAGAACAGCG
EST: gi|193511651|gb|FK470446.1|FK470446
EST:     CTTTTGTTCCACAAGCAGTCCTTCCTTCGAG                         CTATACAGCTAGCGAAGTAGATGTTGGTTCTGATAAGTCACCAGAACAGCG
genomic: CTTTTGTTCCACAAGCAGTCCTTCCTTCGAGgtgatttatg ... tggtttgcagCTATACAGCTAGCGAAGTAGATGTTGGTTCTGATAAGTCACCAGAACAGCG
EST: gi|298189796|gb|HO038199.1|HO038199
EST:     AGGGAAACAGCGTACACTCCTTTTGTTCCACAAGCAGTCCTTCCTTCGAG                         CTATACAGCTAGCGAAGTGGATGTTGGTTCT
genomic: AGGGAAACAGCGTACACTCCTTTTGTTCCACAAGCAGTCCTTCCTTCGAGgtgatttatg ... tggtttgcagCTATACAGCTAGCGAAGTAGATGTTGGTTCT
EST: gi|298185952|gb|HO031113.1|HO031113
EST:     AGGGAAACAGCGTACACTCCTTTTGTTCCACAAGCAGTCCTTCCTTCGAG                         CTATACAGCTAGCGAAGTAGATGTTGGTTCTGATAAGTCGCCAGAACAGCG
genomic: AGGGAAACAGCGTACACTCCTTTTGTTCCACAAGCAGTCCTTCCTTCGAGgtgatttatg ... tggtttgcagCTATACAGCTAGCGAAGTAGATGTTGGTTCTGATAAGTCACCAGAACAGCG
EST: gi|15662381|gb|BI699752.1|BI699752
EST:     AGGGAAACAGCGTACACTCCTTTTGTTCCACAAGCAGTCCTTCCTTCGAG                         CTATACAGCTAGCGAAGTAGATGTTGGTTCTGATAAGTCACCAGAACAGCG
genomic: AGGGAAACAGCGTACACTCCTTTTGTTCCACAAGCAGTCCTTCCTTCGAGgtgatttatg ... tggtttgcagCTATACAGCTAGCGAAGTAGATGTTGGTTCTGATAAGTCACCAGAACAGCG
EST: gi|37994080|gb|CF805826.1|CF805826
EST:     AGGGAAACAGCGTACACTCCTTTTGTTCCACAAGCAGTCCTTCCTTCGAG                         CTATACAGCTAGCGAAGTAGATGTTGGTTCTGATAAGTCACCAGAACAGCG
genomic: AGGGAAACAGCGTACACTCCTTTTGTTCCACAAGCAGTCCTTCCTTCGAGgtgatttatg ... tggtttgcagCTATACAGCTAGCGAAGTAGATGTTGGTTCTGATAAGTCACCAGAACAGCG
EST: gi|7686453|gb|AW757101.1|AW757101
EST:     AGGGAAACAGCGTACACTCCTTTTGTTCCACAAGCAGTCCTTCCTTCGAG                         CTATACAGCTAGCGAAGTAGATGTTGGTTCTGATAAGTCACCAGAACAGCG
genomic: AGGGAAACAGCGTACACTCCTTTTGTTCCACAAGCAGTCCTTCCTTCGAGgtgatttatg ... tggtttgcagCTATACAGCTAGCGAAGTAGATGTTGGTTCTGATAAGTCACCAGAACAGCG
EST: gi|209725412|gb|BW651556.1|BW651556
EST:     AGGGAAACAGCGTACACTCCTTTTGTTCCACAAGCAGTCCTTCCTTCGAG                         CTATACAGCTAGCGAAGTAGATGTTGGTTCTGATAAGTCACCAGAACAGCG
genomic: AGGGAAACAGCGTACACTCCTTTTGTTCCACAAGCAGTCCTTCCTTCGAGgtgatttatg ... tggtttgcagCTATACAGCTAGCGAAGTAGATGTTGGTTCTGATAAGTCACCAGAACAGCG
EST: gi|208146298|gb|GD948403.1|GD948403
EST:     AGGGAAACAGCGTACACTCCTTTTGTTCCACAAGCAGTCCTTCCTTCGAG                         CTATACAGCTAGCGAAGTAGATGTTGGTTCTGATAAGTCACCAGAACAGCG
genomic: AGGGAAACAGCGTACACTCCTTTTGTTCCACAAGCAGTCCTTCCTTCGAGgtgatttatg ... tggtttgcagCTATACAGCTAGCGAAGTAGATGTTGGTTCTGATAAGTCACCAGAACAGCG
EST: gi|193476691|gb|FK439538.1|FK439538
EST:     AGGGAAACAGCGTACACTCCTTTTGTTCCTCAAGCAGTCCTTCCTTCGAG                         CTATACAGCTAGCGAAGTAGATGTTGGTTCTGATAAGTCACCAGAACAGCG
genomic: AGGGAAACAGCGTACACTCCTTTTGTTCCACAAGCAGTCCTTCCTTCGAGgtgatttatg ... tggtttgcagCTATACAGCTAGCGAAGTAGATGTTGGTTCTGATAAGTCACCAGAACAGCG
EST: gi|298196583|gb|HO041326.1|HO041326
EST:     AGGGAAACAGCGTACACTCCTTTTGTTCCACAAGCAGTCCTTCCTTCGAG                         CTATACAGCTAGCGAAGTGGATGTTGGTTCTGATAAGTCACCAGAACAGCG
genomic: AGGGAAACAGCGTACACTCCTTTTGTTCCACAAGCAGTCCTTCCTTCGAGgtgatttatg ... tggtttgcagCTATACAGCTAGCGAAGTAGATGTTGGTTCTGATAAGTCACCAGAACAGCG
EST: gi|21888894|gb|BQ742107.1|BQ742107
EST:     TTTTGTTCCACAAGCAGTCCTTCCTTCGAG                         CTATACAGCTAGCGAAGTAGATGTTGGTTCTGATAAGTCACCAGAACAGCG
genomic: TTTTGTTCCACAAGCAGTCCTTCCTTCGAGgtgatttatg ... tggtttgcagCTATACAGCTAGCGAAGTAGATGTTGGTTCTGATAAGTCACCAGAACAGCG
EST: gi|151398998|gb|EV268869.1|EV268869
EST:     AGGGAAACAGCGTACACTCCTTTTGTTCCACAAGCAGTCCTTCCTTCGAG                         CTATACAGCTAGCGAAGTAGATGTTGGTTCTGATAAGTCACCAGAACAGCG
genomic: AGGGAAACAGCGTACACTCCTTTTGTTCCACAAGCAGTCCTTCCTTCGAGgtgatttatg ... tggtttgcagCTATACAGCTAGCGAAGTAGATGTTGGTTCTGATAAGTCACCAGAACAGCG
EST: gi|192299164|gb|FG992895.1|FG992895
EST:     AGGGAAACAGCGTACACTCCTTTTGTTCCACAAGCAGTCCTTCCTTCGAG                         CTATACAGCTAGCGAAGTAGATGTTGGTTCTGATAAGTCACCAGAACAGCG
genomic: AGGGAAACAGCGTACACTCCTTTTGTTCCACAAGCAGTCCTTCCTTCGAGgtgatttatg ... tggtttgcagCTATACAGCTAGCGAAGTAGATGTTGGTTCTGATAAGTCACCAGAACAGCG
EST: gi|207829398|gb|GD804016.1|GD804016
EST:     AGGGAAACAGCGTACACTCCTTTTGTTCCTCAAGCAGTCCTTCCTTCGAG                         CTATACAGCTAGCGAAGT
genomic: AGGGAAACAGCGTACACTCCTTTTGTTCCACAAGCAGTCCTTCCTTCGAGgtgatttatg ... tggtttgcagCTATACAGCTAGCGAAGT
EST: gi|209702008|gb|BW683185.1|BW683185
EST:     AGGGAAACAGCGTACACTCCTTTTGTTCCACAAGCAGTCCTTCCTTCGAG                         CTATACAGCTAGCGAAGTAGATGTTGGTTCTGATAAGTCACCAGAACAGCG
genomic: AGGGAAACAGCGTACACTCCTTTTGTTCCACAAGCAGTCCTTCCTTCGAGgtgatttatg ... tggtttgcagCTATACAGCTAGCGAAGTAGATGTTGGTTCTGATAAGTCACCAGAACAGCG
EST: gi|192296912|gb|FG990258.1|FG990258
EST:     AGGGAAACAGCGTACACTCCTTTTGTTCCACAAGCAGTCCTTCCTTCGAG                         CTATACAGCTAGCGAAGTAGATGTTGGTTCTGATAAGTCACCAGAACAGCG
genomic: AGGGAAACAGCGTACACTCCTTTTGTTCCACAAGCAGTCCTTCCTTCGAGgtgatttatg ... tggtttgcagCTATACAGCTAGCGAAGTAGATGTTGGTTCTGATAAGTCACCAGAACAGCG
EST: gi|192315290|gb|FK009610.1|FK009610
EST:     AGGGAAACAGCGTACACTCCTTTTGTTCCACAAGCAGTCCTTCCTTCGAG                         CTATACAGCTAGCGAAGTAGATGTTGGTTCTGATAAGTCACCAGAACAGCG
genomic: AGGGAAACAGCGTACACTCCTTTTGTTCCACAAGCAGTCCTTCCTTCGAGgtgatttatg ... tggtttgcagCTATACAGCTAGCGAAGTAGATGTTGGTTCTGATAAGTCACCAGAACAGCG
EST: gi|19452417|gb|BM953827.1|BM953827
EST:     AGGGAAACAGCGTACACTCCTTTTGTTCCACAAGCAGTCCTTCCTTCGAG                         CTATACAGCTAGCGAAGTAGATGTTGGTTCTGATA-GTCACCAGAA
genomic: AGGGAAACAGCGTACACTCCTTTTGTTCCACAAGCAGTCCTTCCTTCGAGgtgatttatg ... tggtttgcagCTATACAGCTAGCGAAGTAGATGTTGGTTCTGATAAGTCACCAGAA
EST: gi|10254732|gb|BE822498.1|BE822498
EST:     AGGGAAACAGCGTACACTNNNNTTGTTCCACAAGCAGTNNNNNNNTCGAG                         CTATACAGCTAGCGAAGTAGATGTTGGNTCTGATAAGTCACCAGAACAGCG
genomic: AGGGAAACAGCGTACACTCCTTTTGTTCCACAAGCAGTCCTTCCTTCGAGgtgatttatg ... tggtttgcagCTATACAGCTAGCGAAGTAGATGTTGGTTCTGATAAGTCACCAGAACAGCG
EST: gi|21255947|gb|BQ452835.1|BQ452835
EST:     AGGGAAACAGCGTACACTCCTTTTGTTCCACAAGCAGTCCTTCCTTCGAG                         CTATACAGCTAGCGAAGTAGATGTTGGTTCTGATAAGTCACCAGAACAGCG
genomic: AGGGAAACAGCGTACACTCCTTTTGTTCCACAAGCAGTCCTTCCTTCGAGgtgatttatg ... tggtttgcagCTATACAGCTAGCGAAGTAGATGTTGGTTCTGATAAGTCACCAGAACAGCG
EST: gi|9565390|gb|BE474899.1|BE474899
EST:     AGGGAAACAGCGTACACTCCTTTTGTTCCACAAGCAGTCCTTCCTTCGAG                         CTATACAGCTAGCGAAGTAGATGTTGGTTCTGATAAGTCACCAGAACAGCG
genomic: AGGGAAACAGCGTACACTCCTTTTGTTCCACAAGCAGTCCTTCCTTCGAGgtgatttatg ... tggtttgcagCTATACAGCTAGCGAAGTAGATGTTGGTTCTGATAAGTCACCAGAACAGCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agttctcattaccgttatattcaatatgacatgggattttcattttggtttgcagCTATACAGCTAGCGAAGTAGATGTTGGTTCTGATAAGTCACCAGAACAGCGTGCCCTGCTTGTGGAATCAAGGAG
                                    ttttcatttt  CT-rich tract
              ttatattcaatatga  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gatcaattgttcttatgtagtcaatataagtgttctgttggtattagttctcattaccgttatattcaatatgacatgggattttcattttggtttgcagCTATACAGCTAGCGAAGTAGATGTTGGTTCTGATAAGTCACCAGAACAGCGTGCCCTGCTTGTGGAATCAAGGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG
- - - - - - -tatgtag
- - - - - - - - - - - - - - - - -tctgttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgacatg