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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atcacatatgatccgtttcattatggacttgaacctcttgatcccaactggcagagattgctagggttttttcggttaactttttagttgtgtgatgcagATCGTTGATGTCCTTCATCCAGGGAGGGCTAATGTTTCCAAG

Basic information

species Glycine max
transcript GLYMA20G37190.1
intron # 1
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|298187088|gb|HO034237.1|HO034237
EST:     TCCGAACCAGAAAGTTCATGACAAACAGGCTTCTCTCCAGAAAGCAATTC                         ATCGTTGATGTCCTTCATCCAGGGAGGGCTAATGTTTCCAAG
genomic: TCCGAACCAGAAAGTTCATGACAAACAGGCTTCTCTCCAGAAAGCAATTCgtaagttttt ... tgtgatgcagATCGTTGATGTCCTTCATCCAGGGAGGGCTAATGTTTCCAAG
EST: gi|6567197|gb|AW234810.1|AW234810
EST:     TCCGAACCAGAAAGTTCATGACAAACAGGCTTCTCTCCAGAAAGCAATTC                         ATCGTTGATGTCCTTCATCCAGGGAGGGCTAATGTTTCCAAG
genomic: TCCGAACCAGAAAGTTCATGACAAACAGGCTTCTCTCCAGAAAGCAATTCgtaagttttt ... tgtgatgcagATCGTTGATGTCCTTCATCCAGGGAGGGCTAATGTTTCCAAG
EST: gi|17964649|gb|BM271381.1|BM271381
EST:     TCCGAACCAGAAAGTTCATGACGAACAGGCTTCTCTCCAGAAAGCAATTC                         ATCGTTGATGTCCTTCATCCAGGGAGGGCTAATGTTTCCAAG
genomic: TCCGAACCAGAAAGTTCATGACAAACAGGCTTCTCTCCAGAAAGCAATTCgtaagttttt ... tgtgatgcagATCGTTGATGTCCTTCATCCAGGGAGGGCTAATGTTTCCAAG
EST: gi|193611659|gb|FK560864.1|FK560864
EST:     CTTCTCTCCAGAAAGCAATTC                         ATCGTTGATGTCCTTCATCCAGGGAGGGCTAATGTTTCCAAG
genomic: CTTCTCTCCAGAAAGCAATTCgtaagttttt ... tgtgatgcagATCGTTGATGTCCTTCATCCAGGGAGGGCTAATGTTTCCAAG
EST: gi|17023150|gb|BM094184.1|BM094184
EST:     TCCGAACCAGAAAGTTCATGACGAACAGGCTTCTCTCCAGAAAGCAATTC                         ATCGTTGATGTCCTTCATCCAGGGAGGGCTAATGTTTCCAAG
genomic: TCCGAACCAGAAAGTTCATGACAAACAGGCTTCTCTCCAGAAAGCAATTCgtaagttttt ... tgtgatgcagATCGTTGATGTCCTTCATCCAGGGAGGGCTAATGTTTCCAAG
EST: gi|298184841|gb|HO030054.1|HO030054
EST:     TCCGAACCAGAAAGTTCATGACAAACAGGCTTCTCTCCAGAAAGCAATTC                         ATCGTTGATGTCCTTCATCCAGGGAGGGCTAATGTTTCCAAG
genomic: TCCGAACCAGAAAGTTCATGACAAACAGGCTTCTCTCCAGAAAGCAATTCgtaagttttt ... tgtgatgcagATCGTTGATGTCCTTCATCCAGGGAGGGCTAATGTTTCCAAG
EST: gi|193325398|gb|FK291830.1|FK291830
EST:     CTTCTCTCCAGAAAGCAATTC                         ATCGTTGATGTCCTTCATCCAGGGAGGGCTAATGTTTCCAAG
genomic: CTTCTCTCCAGAAAGCAATTCgtaagttttt ... tgtgatgcagATCGTTGATGTCCTTCATCCAGGGAGGGCTAATGTTTCCAAG
EST: gi|192323207|gb|FK016338.1|FK016338
EST:     TCCGAACCAGAAAGTTTATGACAAACAGGCTTCTCTCCAGAAAGCAATTC                         ATCGTTGATGTCCTTCATCCAGGGAGGGCTAATGTTTCCAAG
genomic: TCCGAACCAGAAAGTTCATGACAAACAGGCTTCTCTCCAGAAAGCAATTCgtaagttttt ... tgtgatgcagATCGTTGATGTCCTTCATCCAGGGAGGGCTAATGTTTCCAAG
EST: gi|6951361|gb|AW423429.1|AW423429
EST:     TCCGAACCAGAAAGTTCATGACAAACAGGCTTCTCTCCAGAAAGCAATTC                         ATCGTTGATGTCCTTCATCCAGGGAGGGCTAATGTTTCCAAG
genomic: TCCGAACCAGAAAGTTCATGACAAACAGGCTTCTCTCCAGAAAGCAATTCgtaagttttt ... tgtgatgcagATCGTTGATGTCCTTCATCCAGGGAGGGCTAATGTTTCCAAG
EST: gi|4396941|gb|AI495938.1|AI495938
EST:     TCCGAACCAGAAAGTTCATGACAAACAGGCTTCTCTCCAGAAAGCAATTC                         ATCGTTGATGTCCTTCATCCAGGGAGGGCTAATGTTTCCAAG
genomic: TCCGAACCAGAAAGTTCATGACAAACAGGCTTCTCTCCAGAAAGCAATTCgtaagttttt ... tgtgatgcagATCGTTGATGTCCTTCATCCAGGGAGGGCTAATGTTTCCAAG
EST: gi|13790809|gb|BG653400.1|BG653400
EST:     TCCGAACCAGAAAGTTCATGACAAACAGGCTTCTCTCCAGAAAGCAATTC                         ATCGTTGATGTCCTTCATCCAGGGAGGGCTAATGTTTCCAAG
genomic: TCCGAACCAGAAAGTTCATGACAAACAGGCTTCTCTCCAGAAAGCAATTCgtaagttttt ... tgtgatgcagATCGTTGATGTCCTTCATCCAGGGAGGGCTAATGTTTCCAAG
EST: gi|298183483|gb|HO028696.1|HO028696
EST:     TCCGAACCAGAAAGTTCATGACAAACAGGCTTCTCTCCAGAAAGCAATTC                         ATCGTTGATGTCCTTCATCCAGGGAGGGCTAATGTTTCCAAG
genomic: TCCGAACCAGAAAGTTCATGACAAACAGGCTTCTCTCCAGAAAGCAATTCgtaagttttt ... tgtgatgcagATCGTTGATGTCCTTCATCCAGGGAGGGCTAATGTTTCCAAG
EST: gi|298167320|gb|HO010759.1|HO010759
EST:     TCCGAACCAGAAAGTTCATGACAAACAGGCTTCTCTCCAGAAAGCAATTC                         ATCGTTGATGTCCTTCATCCAGGGAGGGCTAATGTTTCCAAG
genomic: TCCGAACCAGAAAGTTCATGACAAACAGGCTTCTCTCCAGAAAGCAATTCgtaagttttt ... tgtgatgcagATCGTTGATGTCCTTCATCCAGGGAGGGCTAATGTTTCCAAG
EST: gi|24136103|gb|BU926613.1|BU926613
EST:     TCCGAACCAGAAAGTTCATGACGAACAGGCTTCTCTCCAGAAAGCAATTC                         ATCGTTGATGTCCTTCATCCAGGGAGGGCTAATGTTTCCAAG
genomic: TCCGAACCAGAAAGTTCATGACAAACAGGCTTCTCTCCAGAAAGCAATTCgtaagttttt ... tgtgatgcagATCGTTGATGTCCTTCATCCAGGGAGGGCTAATGTTTCCAAG
EST: gi|192322799|gb|FK014490.1|FK014490
EST:     TCCGAACCAGAAAGTTCATGACAAACAGGCTTCTCTCCAGAAAGCAACTC                         ATCGTTGATGTCCTTCATCCAGGGAGGGCTAATGTTTCCAAG
genomic: TCCGAACCAGAAAGTTCATGACAAACAGGCTTCTCTCCAGAAAGCAATTCgtaagttttt ... tgtgatgcagATCGTTGATGTCCTTCATCCAGGGAGGGCTAATGTTTCCAAG
EST: gi|193461417|gb|FK428872.1|FK428872
EST:     TCCGAACCAGAAAGTTCATGACAAACAGGCTTCTCTCCAGAAAGCAATTC                         ATCGTTGATGTCCTTCATCCAGGGAGGGCTAATGTTTCCAAG
genomic: TCCGAACCAGAAAGTTCATGACAAACAGGCTTCTCTCCAGAAAGCAATTCgtaagttttt ... tgtgatgcagATCGTTGATGTCCTTCATCCAGGGAGGGCTAATGTTTCCAAG
EST: gi|208266231|gb|GE064552.1|GE064552
EST:     TCCGAACCAGAAAGTTCATGACAAACAGGCTTCTCTCCAGAAAGCAATTC                         ATCGTTGATGTCCT
genomic: TCCGAACCAGAAAGTTCATGACAAACAGGCTTCTCTCCAGAAAGCAATTCgtaagttttt ... tgtgatgcagATCGTTGATGTCCT
EST: gi|208050350|gb|GD845517.1|GD845517
EST:     TCCGAACCAGAAAGTTCATGACAAACAGGCTTCTCTCCAGAAAGCAATTC                         ATCGTTGATGTCCTTCATCCAGGGAGGGCTAATGTTTCCAAG
genomic: TCCGAACCAGAAAGTTCATGACAAACAGGCTTCTCTCCAGAAAGCAATTCgtaagttttt ... tgtgatgcagATCGTTGATGTCCTTCATCCAGGGAGGGCTAATGTTTCCAAG
EST: gi|5126552|gb|AI748288.1|AI748288
EST:     TCCGAACCAGAAAGTTCATGACAAACAGGCTTCTCTCCAGAAAGCAATTC                         ATCGTTGATGTCCTTCATCCAGGGAGGGCTAATGTTTCCAAG
genomic: TCCGAACCAGAAAGTTCATGACAAACAGGCTTCTCTCCAGAAAGCAATTCgtaagttttt ... tgtgatgcagATCGTTGATGTCCTTCATCCAGGGAGGGCTAATGTTTCCAAG
EST: gi|18040612|gb|BM308906.1|BM308906
EST:     TCCGAACCAGAAAGTTCATGACGAACAGGCTTCTCTCCAGAAAGCAATTC                         ATCGTTGATGTCCTTCATCCAGGGAGGGCTAATGTTTCCAAG
genomic: TCCGAACCAGAAAGTTCATGACAAACAGGCTTCTCTCCAGAAAGCAATTCgtaagttttt ... tgtgatgcagATCGTTGATGTCCTTCATCCAGGGAGGGCTAATGTTTCCAAG
EST: gi|21602519|gb|BQ612850.1|BQ612850
EST:     TCCGAACCAGAAAGTTCATGACAAACAGGCTTCTCTCCAGAAAGCAATTC                         ATCGTTGATGTCCTTCATCCAGGGAGGGCTAATGTTTCCAAG
genomic: TCCGAACCAGAAAGTTCATGACAAACAGGCTTCTCTCCAGAAAGCAATTCgtaagttttt ... tgtgatgcagATCGTTGATGTCCTTCATCCAGGGAGGGCTAATGTTTCCAAG
EST: gi|193712915|gb|FK649238.1|FK649238
EST:     TCCGAACCAGAAAGTTCATGACAAACAGGCTTCTCTCCAGAAAGCAATTC                         ATCGTTGATGTCCTTNATCCAGGGAGGGCTAATGTTTCCAAG
genomic: TCCGAACCAGAAAGTTCATGACAAACAGGCTTCTCTCCAGAAAGCAATTCgtaagttttt ... tgtgatgcagATCGTTGATGTCCTTCATCCAGGGAGGGCTAATGTTTCCAAG
EST: gi|193383197|gb|FK348550.1|FK348550
EST:     TCCGAACCAGAAAGTTCATGACAAACAGGCTTCTCTCCAGAAAGCAATTC                         AATCGTTGATG
genomic: TCCGAACCAGAAAGTTCATGACAAACAGGCTTCTCTCCAGAAAGCAATTCgtaagttttt ... tgtgatgcagA-TCGTTGATG
EST: gi|9899853|gb|BE608821.1|BE608821
EST:     TCCGAACCAGAAAGTTCATGACAAACAGGCTTCTCTCCAGAAAGCAATTC                         ATCGTTGATGTCCTTCATCCAGGGAGGGCTAATGTTTCCAAG
genomic: TCCGAACCAGAAAGTTCATGACAAACAGGCTTCTCTCCAGAAAGCAATTCgtaagttttt ... tgtgatgcagATCGTTGATGTCCTTCATCCAGGGAGGGCTAATGTTTCCAAG
EST: gi|193561713|gb|FK521618.1|FK521618
EST:     TCCGAACCAGAAAGTTCATGACAAACAGGCTTCTCTCCAGAAAGCAATTC                         ATCGTTGATGTCCTN-ATCCAGGGA
genomic: TCCGAACCAGAAAGTTCATGACAAACAGGCTTCTCTCCAGAAAGCAATTCgtaagttttt ... tgtgatgcagATCGTTGATGTCCTTCATCCAGGGA
EST: gi|298192673|gb|HO033107.1|HO033107
EST:     TCCGAACCAGAAAGTTCATGACAAACAGGCTTCTCTCCAGAAAGCAATTC                         ATCGTTGATGTCCTTCATCCAGGGAGGGCTAATGTTTCCAAG
genomic: TCCGAACCAGAAAGTTCATGACAAACAGGCTTCTCTCCAGAAAGCAATTCgtaagttttt ... tgtgatgcagATCGTTGATGTCCTTCATCCAGGGAGGGCTAATGTTTCCAAG
EST: gi|193656507|gb|FK604995.1|FK604995
EST:     TCCGAACCAGAAAGTTCATGACAAACAGGCTTCTCTCCAGAAAGCAATTC                         ATCGTTGATGTCCTTCATCCAGGGAGGGCTAATGTTTCCAAG
genomic: TCCGAACCAGAAAGTTCATGACAAACAGGCTTCTCTCCAGAAAGCAATTCgtaagttttt ... tgtgatgcagATCGTTGATGTCCTTCATCCAGGGAGGGCTAATGTTTCCAAG
EST: gi|6913093|gb|AW394623.1|AW394623
EST:     TCCGAACCAGAAAGTTCATGACAAACAGGCTTCTCTCCAGAAAGCAATTC                         ATCGTTGATGTCCTTCATCCAGGGAGGGCTAATGTTTCCAAG
genomic: TCCGAACCAGAAAGTTCATGACAAACAGGCTTCTCTCCAGAAAGCAATTCgtaagttttt ... tgtgatgcagATCGTTGATGTCCTTCATCCAGGGAGGGCTAATGTTTCCAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aactggcagagattgctagggttttttcggttaactttttagttgtgtgatgcagATCGTTGATGTCCTTCATCCAGGGAGGGCTAATGTTTCCAAG
                            ggttaac  putative branch site (score: 3)
                              ttaactttttagtt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
atcacatatgatccgtttcattatggacttgaacctcttgatcccaactggcagagattgctagggttttttcggttaactttttagttgtgtgatgcagATCGTTGATGTCCTTCATCCAGGGAGGGCTAATGTTTCCAAG

- - - - - - - - - - - - - - - - -cctcttg
- - - - - - - - - - - - - - - - - - - - - cccaact
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttgctag