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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

taattactgattattttgaatgatgactattgtctattgctatatttatgtatttgataattaatacattatttctgactatatctttgtcattttgtgttttctcagtGAAACTAATTGGTAAGCTACAAGATGGTACCGCTTTTTTGAAAAAGGGCCATGATGAAGAAGAGAAGCTGTTTGAATTCAAAACAGATGAGGG

Basic information

species Glycine max
transcript GLYMA18G32830.1
intron # 6
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|193333217|gb|FK298751.1|FK298751
EST:     CGTCCAAATGA-GGGGCCATTGTTAAAGT                         GAAACTAATTGGTAAGCTACAAGATGGTACCGCTTTTTTGAAAAAGGGCCA
genomic: CGTCCAAATGAGGGGGCCATTGTTAAAGGtaattactga ... ttttctcagtGAAACTAATTGGTAAGCTACAAGATGGTACCGCTTTTTTGAAAAAGGGCCA
EST: gi|193549508|gb|FK510549.1|FK510549
EST:     GGGGGCCATTGTTAAAGT                         GAAACTAATTGGTAAGCTACAAGATGGTACCGCTTTTTTGAAAAAGGGCCA
genomic: GGGGGCCATTGTTAAAGGtaattactga ... ttttctcagtGAAACTAATTGGTAAGCTACAAGATGGTACCGCTTTTTTGAAAAAGGGCCA
EST: gi|193668794|gb|FK609028.1|FK609028
EST:     GAAGGGGAAGGATTATTGTAGCGTCCAAATGAGGGGGCCATTGTTAAAGT                         GAAACTAATTGGTAAGCTACAAGATGGTACCGCTTTTTTGAAAAAGGGCCA
genomic: GAAGGGGAAGGA-TA-TG-AGCGTCCAAATGAGGGGGCCATTGTTAAAGGtaattactga ... ttttctcagtGAAACTAATTGGTAAGCTACAAGATGGTACCGCTTTTTTGAAAAAGGGCCA
EST: gi|298183231|gb|HO028216.1|HO028216
EST:     AAGGAAGGGGAAGGATATGAGCGTCCAAATGAGGGGGCCATTGTTAAAGT                         GAAACTAATTGGTAAGCTACAAGATGGTACCGCTTTTTTGAAAAAGGGCCA
genomic: AAGGAAGGGGAAGGATATGAGCGTCCAAATGAGGGGGCCATTGTTAAAGGtaattactga ... ttttctcagtGAAACTAATTGGTAAGCTACAAGATGGTACCGCTTTTTTGAAAAAGGGCCA
EST: gi|192334305|gb|FK024404.1|FK024404
EST:     AAGGAAGGGGAAGGATATGAGCGTCCAAATGAGGGGGCCATTGTTAAAGT                         GAAACTAATTGGTAAGCTACAAGATGGTACCGCTTTTTTGAAAAAGGGCCA
genomic: AAGGAAGGGGAAGGATATGAGCGTCCAAATGAGGGGGCCATTGTTAAAGGtaattactga ... ttttctcagtGAAACTAATTGGTAAGCTACAAGATGGTACCGCTTTTTTGAAAAAGGGCCA
EST: gi|193610133|gb|FK565697.1|FK565697
EST:     GGGGGCCATTGTTAAAGT                         GAAACTAATTGGTAAGCTACAAGATGGTACCGCTTTTTTGAAAAAGGGCCA
genomic: GGGGGCCATTGTTAAAGGtaattactga ... ttttctcagtGAAACTAATTGGTAAGCTACAAGATGGTACCGCTTTTTTGAAAAAGGGCCA
EST: gi|193555373|gb|FK511044.1|FK511044
EST:     GGGGGCCATTGTTAAAGT                         GAAACTAATTGGTAAGCTACAAGATGGTACCGCTTTTTTGAAAAAGGGCCA
genomic: GGGGGCCATTGTTAAAGGtaattactga ... ttttctcagtGAAACTAATTGGTAAGCTACAAGATGGTACCGCTTTTTTGAAAAAGGGCCA
EST: gi|207801684|gb|GD775168.1|GD775168
EST:     GGGGGCCATTGTTAAAGT                         GAAACTAATTGGTAAGCTACAAGATGGTACCGCTTTTTTGAAAAAGGGCCA
genomic: GGGGGCCATTGTTAAAGGtaattactga ... ttttctcagtGAAACTAATTGGTAAGCTACAAGATGGTACCGCTTTTTTGAAAAAGGGCCA
EST: gi|193467266|gb|FK434367.1|FK434367
EST:     GGGGGCCATTGTTAAAGT                         GAAACTAATTGGTAAGCTACAAGATGGTACCGCTTTTTTGAAAAAGGGCCA
genomic: GGGGGCCATTGTTAAAGGtaattactga ... ttttctcagtGAAACTAATTGGTAAGCTACAAGATGGTACCGCTTTTTTGAAAAAGGGCCA
EST: gi|151413161|gb|EV282969.1|EV282969
EST:     AAGGAAGGGGAAGGATATGAGCGTCCAAATGAGGGGGCCATTGTTAAAGT                         GAAACTAATTGGTAAGCTACAAGATGGTACCGCTTTTTTGAAAAAGGGCCA
genomic: AAGGAAGGGGAAGGATATGAGCGTCCAAATGAGGGGGCCATTGTTAAAGGtaattactga ... ttttctcagtGAAACTAATTGGTAAGCTACAAGATGGTACCGCTTTTTTGAAAAAGGGCCA
EST: gi|208270880|gb|GE066122.1|GE066122
EST:     GGGGGCCATTGTTAAAGT                         GAAACTAATTGGTAAGCTACAAGATGGTACCGCTTTTTTGAAAAAGGGCCA
genomic: GGGGGCCATTGTTAAAGGtaattactga ... ttttctcagtGAAACTAATTGGTAAGCTACAAGATGGTACCGCTTTTTTGAAAAAGGGCCA
EST: gi|193618551|gb|FK566683.1|FK566683
EST:     GGGGGCCATTGTTAAAGT                         GAAACTAATTGGTAAGCTACAAGATGGTACCGCTTTTTTGAAAAAGGGCCA
genomic: GGGGGCCATTGTTAAAGGtaattactga ... ttttctcagtGAAACTAATTGGTAAGCTACAAGATGGTACCGCTTTTTTGAAAAAGGGCCA
EST: gi|207834832|gb|GD808595.1|GD808595
EST:     GGGGGCCATTGTTAAAGT                         GAAACTAATTGGTAAGCTACAAGATGGTACCGCTTTTTTGAAAAAGGGCCA
genomic: GGGGGCCATTGTTAAAGGtaattactga ... ttttctcagtGAAACTAATTGGTAAGCTACAAGATGGTACCGCTTTTTTGAAAAAGGGCCA
EST: gi|193551876|gb|FK507289.1|FK507289
EST:     GGGGGCCATTGTTAAAGT                         GAAACTAATTGGTAGGCTACAAGATGGTACCGCTTTTTTGAAAAAGGGCCA
genomic: GGGGGCCATTGTTAAAGGtaattactga ... ttttctcagtGAAACTAATTGGTAAGCTACAAGATGGTACCGCTTTTTTGAAAAAGGGCCA
EST: gi|208315086|gb|GE113078.1|GE113078
EST:     GGGGGCCATTGTTAAAGT                         GAAACTAATTGGTAAGCTACAAGATGGTACCGCTTTTTTGAAAAAGGGCCA
genomic: GGGGGCCATTGTTAAAGGtaattactga ... ttttctcagtGAAACTAATTGGTAAGCTACAAGATGGTACCGCTTTTTTGAAAAAGGGCCA
EST: gi|151412679|gb|EV282491.1|EV282491
EST:     AAGGAAGGGGAAGGATATGAGCGTCCAAATGAGGGGGCCATTGTTAAAGT                         GAAACTAATTGGTAAGCTACAAGATGGTACCGCTTTTTTGAAAAAGGGCCA
genomic: AAGGAAGGGGAAGGATATGAGCGTCCAAATGAGGGGGCCATTGTTAAAGGtaattactga ... ttttctcagtGAAACTAATTGGTAAGCTACAAGATGGTACCGCTTTTTTGAAAAAGGGCCA
EST: gi|192316447|gb|FK008180.1|FK008180
EST:     AGGGAAGGGGAAGGATATGAGCGTCCGAATGAGGGGGCCATTGTTAAAGT                         GAAACTAATTGGTAAGCTACAAGATGGTACCGCTTTTTTGAAAAAGGGCCA
genomic: AAGGAAGGGGAAGGATATGAGCGTCCAAATGAGGGGGCCATTGTTAAAGGtaattactga ... ttttctcagtGAAACTAATTGGTAAGCTACAAGATGGTACCGCTTTTTTGAAAAAGGGCCA
EST: gi|193656286|gb|FK603346.1|FK603346
EST:     GGGGGCCATTGTTAAAGT                         GAAACTAATTGGTAAGCTACAAGATGGTACCGCTTTTTTGAAAAAGGGCCA
genomic: GGGGGCCATTGTTAAAGGtaattactga ... ttttctcagtGAAACTAATTGGTAAGCTACAAGATGGTACCGCTTTTTTGAAAAAGGGCCA
EST: gi|193631753|gb|FK582744.1|FK582744
EST:     GGGGGCCATTGTTAAAGT                         GAAACTAATTGGTAAGCTACAAGATGGTACCGCTTTTTTGAAAAAGGGCCA
genomic: GGGGGCCATTGTTAAAGGtaattactga ... ttttctcagtGAAACTAATTGGTAAGCTACAAGATGGTACCGCTTTTTTGAAAAAGGGCCA
EST: gi|208315913|gb|GE110615.1|GE110615
EST:     GGGGGCCATTGTTAAAGT                         GAAACTAAATGGTAAGCTACAAGATGGTACCGCTTTTTTGAAAAAGGGCCA
genomic: GGGGGCCATTGTTAAAGGtaattactga ... ttttctcagtGAAACTAATTGGTAAGCTACAAGATGGTACCGCTTTTTTGAAAAAGGGCCA
EST: gi|193323915|gb|FK290095.1|FK290095
EST:     GGGGGCCATTGTTAAAGT                         GAAACTAATTGGTAAGCTACAAGATGGTACCGCTTTTTTGAAAAAGGGCCA
genomic: GGGGGCCATTGTTAAAGGtaattactga ... ttttctcagtGAAACTAATTGGTAAGCTACAAGATGGTACCGCTTTTTTGAAAAAGGGCCA
EST: gi|208234692|gb|GE031495.1|GE031495
EST:     GGGGGCCATTGTTAAAGT                         GAAACTAATTGGTAAGCTACAAGATGGTACCGCTTTTTTGAAAAAGGGCCA
genomic: GGGGGCCATTGTTAAAGGtaattactga ... ttttctcagtGAAACTAATTGGTAAGCTACAAGATGGTACCGCTTTTTTGAAAAAGGGCCA
EST: gi|208073690|gb|GD872815.1|GD872815
EST:     GGGGGCCATTGTTAAAGT                         GAAACTAATTGGTAAGCTACAAGATGGTACCGCTTTTTTGAAAAAGGGCCA
genomic: GGGGGCCATTGTTAAAGGtaattactga ... ttttctcagtGAAACTAATTGGTAAGCTACAAGATGGTACCGCTTTTTTGAAAAAGGGCCA
EST: gi|207735221|gb|GD712094.1|GD712094
EST:     AAGGAAGGGGAAGGATATGAGCGTCCAAATGAGGGGGCCATTGTTAGAGT                         GAAACTAATTGGTAAGCTACAAGATGGTACCGCTTTTTTGAAAAAGGGCCA
genomic: AAGGAAGGGGAAGGATATGAGCGTCCAAATGAGGGGGCCATTGTTAAAGGtaattactga ... ttttctcagtGAAACTAATTGGTAAGCTACAAGATGGTACCGCTTTTTTGAAAAAGGGCCA
EST: gi|193449677|gb|FK416516.1|FK416516
EST:     GGGGGCCATTGTTAAAGT                         GAAACTAATTGGTAAGCTACAAGATGGTACCGCTTTTTTGAAAAAGGGCCA
genomic: GGGGGCCATTGTTAAAGGtaattactga ... ttttctcagtGAAACTAATTGGTAAGCTACAAGATGGTACCGCTTTTTTGAAAAAGGGCCA
EST: gi|208265572|gb|GE063100.1|GE063100
EST:     GGGGGCCATTGTTAAAGT                         GAAACTAATTGGTAAGCTACAAGATGGTACCGCTTTTTTGAAAAAGGGCCA
genomic: GGGGGCCATTGTTAAAGGtaattactga ... ttttctcagtGAAACTAATTGGTAAGCTACAAGATGGTACCGCTTTTTTGAAAAAGGGCCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgataattaatacattatttctgactatatctttgtcattttgtgttttctcagtGAAACTAATTGGTAAGCTACAAGATGGTACCGCTTTTTTGAAAAAGGGCCATGATGAAGAAGAGAAGCTGTTTGAATTCAAAACAGATGAGGG
                  ttctgac  putative branch site (score: 2)
                                      ttttgtgttttctc  putative PPT
     attaatacattatttc  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
taattactgattattttgaatgatgactattgtctattgctatatttatgtatttgataattaatacattatttctgactatatctttgtcattttgtgttttctcagtGAAACTAATTGGTAAGCTACAAGATGGTACCGCTTTTTTGAAAAAGGGCCATGATGAAGAAGAGAAGCTGTTTGAATTCAAAACAGATGAGGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG