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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaccataatctgttgttttctttctcgatttccctaaattgtcgttttttttaatcaccctaggttttcattttgcaattccgctcaatttaggctcttgattagcttccctttcttttttctttttttttttttttgcagATGGGTACCCGTTTGAACCCCCCAAGATGAAGTTTAAAACCAAAGTTTG

Basic information

species Glycine max
transcript GLYMA04G37620.3
intron # 2
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|208276831|gb|GE077408.1|GE077408
EST:     CGGAACTCCTTATGAAGGGGGCATTTTCCAGATTGATATCACATTGCCAG                         ATGGGTACCCGTTTGAACCCCCCAAGATGAAGTTTAAAACCAAAGTTT
genomic: CGGAACTCCTTATGAAGGGGGCATTTTCCAGATTGATATCACATTGCCAGgtaccataat ... ttttttgcagATGGGTACCCGTTTGAACCCCCCAAGATGAAGTTTAAAACCAAAGTTT
EST: gi|254321367|gb|GR824684.1|GR824684
EST:     CGGAACTCCTTATGAAGGGGGCATTTTCCAGATTGATATCACATTGCCAG                         ATGGGTACCCGTTTGAACCCCCCAAGATGAAGTTTAAAACCAAAGTTTG
genomic: CGGAACTCCTTATGAAGGGGGCATTTTCCAGATTGATATCACATTGCCAGgtaccataat ... ttttttgcagATGGGTACCCGTTTGAACCCCCCAAGATGAAGTTTAAAACCAAAGTTTG
EST: gi|192329042|gb|FK019713.1|FK019713
EST:     CGGAACTCCTTATGAAGGGGGCATTTTCCAGATTGATATCACATTGCCAG                         ATGGGTACCCGTTTGAACCCCCCAAGATGAAGTTTAAAACCAAAGTTTG
genomic: CGGAACTCCTTATGAAGGGGGCATTTTCCAGATTGATATCACATTGCCAGgtaccataat ... ttttttgcagATGGGTACCCGTTTGAACCCCCCAAGATGAAGTTTAAAACCAAAGTTTG
EST: gi|31466422|gb|CD408450.1|CD408450
EST:     CCAGA-TGATATCACA-TGCCAG                         ATGGGTACCCGTTTGAACCCCCCAAGATGAAGTTTAAAACCAAAGTTTG
genomic: CCAGATTGATATCACATTGCCAGgtaccataat ... ttttttgcagATGGGTACCCGTTTGAACCCCCCAAGATGAAGTTTAAAACCAAAGTTTG
EST: gi|9440039|gb|BE440550.1|BE440550
EST:     CGGAACTCCTTATGAAGGGGGCATTTTCCAGATTGATATCACATTGCCAG                         ATGGGTACCCGTTTGAACCCCCCAAGATGAAGTTTAAAACCAAAGTTTG
genomic: CGGAACTCCTTATGAAGGGGGCATTTTCCAGATTGATATCACATTGCCAGgtaccataat ... ttttttgcagATGGGTACCCGTTTGAACCCCCCAAGATGAAGTTTAAAACCAAAGTTTG
EST: gi|9205392|gb|BE331616.1|BE331616
EST:     CGGAACTCCTTATGAAGGGGGCATTTTCCAGATTGATATCACATTGCCAG                         ATGGGTACCCGTTTGAACCCCCCAAGATGAAGTTTAAAACCAAAGTTTG
genomic: CGGAACTCCTTATGAAGGGGGCATTTTCCAGATTGATATCACATTGCCAGgtaccataat ... ttttttgcagATGGGTACCCGTTTGAACCCCCCAAGATGAAGTTTAAAACCAAAGTTTG
EST: gi|192334197|gb|FK026578.1|FK026578
EST:     CGGAACTCCTTATGAAGGGGGCATTTTCCAGATTGATATCACATTGCCAG                         ATGGGTACCCGTTTGAACCCCCCAAGATGAAGTTTAAAACCAAAGTTTG
genomic: CGGAACTCCTTATGAAGGGGGCATTTTCCAGATTGATATCACATTGCCAGgtaccataat ... ttttttgcagATGGGTACCCGTTTGAACCCCCCAAGATGAAGTTTAAAACCAAAGTTTG
EST: gi|15204167|gb|BI426935.1|BI426935
EST:     CGGAACTCCTTATGAAGGGGGCATTTTCCAGATTGATATCACATTGCCAG                         ATGGGTACCCGTTTGAACCCCCCAAGATGAAGTTTAAAACCAAAGTTTG
genomic: CGGAACTCCTTATGAAGGGGGCATTTTCCAGATTGATATCACATTGCCAGgtaccataat ... ttttttgcagATGGGTACCCGTTTGAACCCCCCAAGATGAAGTTTAAAACCAAAGTTTG
EST: gi|23727022|gb|BU761524.1|BU761524
EST:     CGGAACTCCTTATGAAGGGGGCATTTTCCAGATTGATATCACATTGCCAG                         ATGGGTACCCGTTTGAACCCCCCAAGATGAAGTTTAAAACCAAAGTTTG
genomic: CGGAACTCCTTATGAAGGGGGCATTTTCCAGATTGATATCACATTGCCAGgtaccataat ... ttttttgcagATGGGTACCCGTTTGAACCCCCCAAGATGAAGTTTAAAACCAAAGTTTG
EST: gi|298172946|gb|HO019930.1|HO019930
EST:     CGGAACTCCTTATGAAGGGGGCATTTTCCAGATTGATATCACATTGCCAG                         ATGGGTACCCGTTTGAACCCCCCAAGATGAAGTTTAAAACCAAAGTTTG
genomic: CGGAACTCCTTATGAAGGGGGCATTTTCCAGATTGATATCACATTGCCAGgtaccataat ... ttttttgcagATGGGTACCCGTTTGAACCCCCCAAGATGAAGTTTAAAACCAAAGTTTG
EST: gi|14125368|gb|BG789806.1|BG789806
EST:     CGGAACTCCTTATGAAGGGGGCATTTTCCAGAGGGGTATCACATTGCCAG                         ATGGGTACCCGTTTGAACCCCCCAAGATGAAGTTTAAAACCAAAGTTTG
genomic: CGGAACTCCTTATGAAGGGGGCATTTTCCAGATTGATATCACATTGCCAGgtaccataat ... ttttttgcagATGGGTACCCGTTTGAACCCCCCAAGATGAAGTTTAAAACCAAAGTTTG
EST: gi|10710312|gb|BF010036.1|BF010036
EST:     TCACATTGCCAG                         ATGGGTACCCGTTTGAACCCCCCAAGATGAAGTTTAAAACCAAAGTTTG
genomic: TCACATTGCCAGgtaccataat ... ttttttgcagATGGGTACCCGTTTGAACCCCCCAAGATGAAGTTTAAAACCAAAGTTTG
EST: gi|26268069|gb|CA819132.1|CA819132
EST:     CGGAACTCCTTATGAAGGGGGCATTTTCCAGATTGATATCACATTGCCAG                         ATGGGTACCCGTTTGAACCCCCCAAGATGAAGTTTAAAACCAAAGTTTG
genomic: CGGAACTCCTTATGAAGGGGGCATTTTCCAGATTGATATCACATTGCCAGgtaccataat ... ttttttgcagATGGGTACCCGTTTGAACCCCCCAAGATGAAGTTTAAAACCAAAGTTTG
EST: gi|10232663|gb|BE801551.1|BE801551
EST:     CGGAACTCCTTATGAAGGGGGCATTTTCCAGATTGATATCACATTGCCAG                         ATGGGTACCCGTTTGAACCCCCCAAGATGAAGTTTAAAACCAAAGTTTG
genomic: CGGAACTCCTTATGAAGGGGGCATTTTCCAGATTGATATCACATTGCCAGgtaccataat ... ttttttgcagATGGGTACCCGTTTGAACCCCCCAAGATGAAGTTTAAAACCAAAGTTTG
EST: gi|151410843|gb|EV280658.1|EV280658
EST:     CGGAACTCCTTATGAAGGGGGCATTTTCCAGATTGATATCACATTGCCAG                         ATGGGTACCCGTTTGAACCCCCCAAGATGAAGTTTAAAACCAAAGTTTG
genomic: CGGAACTCCTTATGAAGGGGGCATTTTCCAGATTGATATCACATTGCCAGgtaccataat ... ttttttgcagATGGGTACCCGTTTGAACCCCCCAAGATGAAGTTTAAAACCAAAGTTTG
EST: gi|192329717|gb|FK023291.1|FK023291
EST:     CGGAACTCCTTATGAAGGGGGCATTTTCCAGATTGATATCACATTGCCAG                         ATGGGTACCCGTTTGAACCCCCCAAGATGAAGTTTAAAACCAAAGTTTG
genomic: CGGAACTCCTTATGAAGGGGGCATTTTCCAGATTGATATCACATTGCCAGgtaccataat ... ttttttgcagATGGGTACCCGTTTGAACCCCCCAAGATGAAGTTTAAAACCAAAGTTTG
EST: gi|193338711|gb|FK303064.1|FK303064
EST:     GGAACTCCTTATGAAGGGG-CATTTTCCAGATTGATAATCACATTGCCAG                         ATGGGTACCCGTTT
genomic: GGAACTCCTTATGAAGGGGGCATTTTCCAGATTGATA-TCACATTGCCAGgtaccataat ... ttttttgcagATGGGTACCCGTTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatttaggctcttgattagcttccctttcttttttctttttttttttttttgcagATGGGTACCCGTTTGAACCCCCCAAGATGAAGTTTAAAACCAAAGTTTG
         tcttgat  putative branch site (score: 4)
               ttagcttccctttctt  CT-rich tract
                         tttcttttttcttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaccataatctgttgttttctttctcgatttccctaaattgtcgttttttttaatcaccctaggttttcattttgcaattccgctcaatttaggctcttgattagcttccctttcttttttctttttttttttttttgcagATGGGTACCCGTTTGAACCCCCCAAGATGAAGTTTAAAACCAAAGTTTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGATG