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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtattatacttgtgtttccatcctctgttcatctttgtttgtcttagactctaactgtgaacatcatttgccattcagGTCGTGGAGAAGACTATTCGTCCATGTCTGGTTGAGCTCAGTGAGGATCCTGATGTTGACGTGCGATTTTTCTCCAACCAAGCACTACAAGCAATTGATC

Basic information

species Glycine max
transcript GLYMA20G24790.1
intron # 12
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|22930981|gb|BU548120.1|BU548120
EST:     TCAATGTGGCAAAGGTATTAGAGTCCATCTTCCCCATCGTTGATCAGTCG                         GTCGTGGAGAAGACTATTCGTCCATGTCTGGTTGAGCTCAGTGAGGATCCT
genomic: TCAATGTGGCAAAGGTATTAGAGTCCATCTTCCCCATCGTTGATCAGTCGgtaagtatta ... tgccattcagGTCGTGGAGAAGACTATTCGTCCATGTCTGGTTGAGCTCAGTGAGGATCCT
EST: gi|192298924|gb|FG987669.1|FG987669
EST:     TCAATGTGGCAAAGGTATTAGAGTCCATCTTCCCCATCGTTGATCAGTCG                         GTCGTGGAGAAGACTATTCGTCCATGTCTGGTTGAGCTCAGTGAGGATCCT
genomic: TCAATGTGGCAAAGGTATTAGAGTCCATCTTCCCCATCGTTGATCAGTCGgtaagtatta ... tgccattcagGTCGTGGAGAAGACTATTCGTCCATGTCTGGTTGAGCTCAGTGAGGATCCT
EST: gi|9205515|gb|BE331739.1|BE331739
EST:     TCAATGTGGCAAACGTATTAGAGTACATCTTTCCCATCGTTGATCAGTCG                         GTCGTGGAGACGACTATTCGTTCATGATCTG-TTGAACTCAGTGAGGA
genomic: TCAATGTGGCAAAGGTATTAGAGTCCATCTTCCCCATCGTTGATCAGTCGgtaagtatta ... tgccattcagGTCGTGGAGAAGACTATTCGTCCATG-TCTGGTTGAGCTCAGTGAGGA
EST: gi|207795028|gb|GD765367.1|GD765367
EST:     TCAATGTGGCAAAGGTATTAGAGTCCATCTTCCCCATCGTTGATCAGTCG                         GTCGTGGAGAAGACTATTCGTCCATGTCTGGTTGAGCTCAGTGAGGATCCT
genomic: TCAATGTGGCAAAGGTATTAGAGTCCATCTTCCCCATCGTTGATCAGTCGgtaagtatta ... tgccattcagGTCGTGGAGAAGACTATTCGTCCATGTCTGGTTGAGCTCAGTGAGGATCCT
EST: gi|192332344|gb|FK026009.1|FK026009
EST:     TTAATGTGGCAAAGGTATTAGAGTCCATCTTCCCCATCGTTGATCAGTCG                         GTCGTGGAGAAGACTATTCGTCCATGTCTGGTTGAGCTCAGTGAGGATCCT
genomic: TCAATGTGGCAAAGGTATTAGAGTCCATCTTCCCCATCGTTGATCAGTCGgtaagtatta ... tgccattcagGTCGTGGAGAAGACTATTCGTCCATGTCTGGTTGAGCTCAGTGAGGATCCT
EST: gi|151394585|gb|EV264456.1|EV264456
EST:     TCAATGTGGCAAAGGTATTAGAGTCCATCTTCCCCATCGTTGATCAGTCG                         GTCGTGGAGAAGACTATTCGTCCATGTCTGGTTGAGCTCAGTGAGGATCCT
genomic: TCAATGTGGCAAAGGTATTAGAGTCCATCTTCCCCATCGTTGATCAGTCGgtaagtatta ... tgccattcagGTCGTGGAGAAGACTATTCGTCCATGTCTGGTTGAGCTCAGTGAGGATCCT
EST: gi|193438870|gb|FK407117.1|FK407117
EST:     TCGTTGATCAGTCG                         GTCGTGGAGAAGACTATTCGTCCATGTCTGGTTGAGCTCAGTGAGGATCCT
genomic: TCGTTGATCAGTCGgtaagtatta ... tgccattcagGTCGTGGAGAAGACTATTCGTCCATGTCTGGTTGAGCTCAGTGAGGATCCT
EST: gi|6914739|gb|AW396269.1|AW396269
EST:     TCAATGTGGCAAAGGTATTAGAGTCCATCTTTCCCATCGTTGATCAGTCG                         GTCGTGGAGAAGACTATTCGTCCATGTCTGGTTGAGCTCAGTGAGGAT
genomic: TCAATGTGGCAAAGGTATTAGAGTCCATCTTCCCCATCGTTGATCAGTCGgtaagtatta ... tgccattcagGTCGTGGAGAAGACTATTCGTCCATGTCTGGTTGAGCTCAGTGAGGAT
EST: gi|21601181|gb|BQ611512.1|BQ611512
EST:     TCAATGTGGCAAAGGTATTAGAGTCCATCTTCCCCATCGTTGATCAGTCG                         GTCGTGGAGAAGACTATTCGTCCATGTCTGGTTGAGCTCAGTGAGGATCCT
genomic: TCAATGTGGCAAAGGTATTAGAGTCCATCTTCCCCATCGTTGATCAGTCGgtaagtatta ... tgccattcagGTCGTGGAGAAGACTATTCGTCCATGTCTGGTTGAGCTCAGTGAGGATCCT
EST: gi|254327333|gb|GR836942.1|GR836942
EST:     TCAATGTGGCAAAGGTATTAGAGTCCATCTTCCCCATCGTTGATCAGTCG                         GTCGTGGAGAAGACTATTCGTCCATGTCTGGTTGAGCTCAGTGAGGATCCT
genomic: TCAATGTGGCAAAGGTATTAGAGTCCATCTTCCCCATCGTTGATCAGTCGgtaagtatta ... tgccattcagGTCGTGGAGAAGACTATTCGTCCATGTCTGGTTGAGCTCAGTGAGGATCCT
EST: gi|308098474|gb|HO760215.1|HO760215
EST:     TCAATGTGGCAAAGGTATTAGAGTCCATCTTCCCCATCGTTGATCAGTCG                         GTCGTGGAGAAGACTATTCGTCCATGTCTGGTTGAGCTCAGTGAGGATCCT
genomic: TCAATGTGGCAAAGGTATTAGAGTCCATCTTCCCCATCGTTGATCAGTCGgtaagtatta ... tgccattcagGTCGTGGAGAAGACTATTCGTCCATGTCTGGTTGAGCTCAGTGAGGATCCT
EST: gi|208237619|gb|GE028865.1|GE028865
EST:     CCATCTTCCCCATCGTTGATCAGTCG                         GTCGTGGAGAAGACTATTCGTCCATGTCTGGTTGAGCTCAGTGGGGATCCT
genomic: CCATCTTCCCCATCGTTGATCAGTCGgtaagtatta ... tgccattcagGTCGTGGAGAAGACTATTCGTCCATGTCTGGTTGAGCTCAGTGAGGATCCT
EST: gi|308098470|gb|HO760211.1|HO760211
EST:     TCAATGTGGCAAAGGTATTAGAGTCCATCTTCCCCATCGTTGATCAGTCG                         GTCGTGGAGAAGACTATTCGTCCATGTCTGGTTGAGCTCAGTGAGGATCCT
genomic: TCAATGTGGCAAAGGTATTAGAGTCCATCTTCCCCATCGTTGATCAGTCGgtaagtatta ... tgccattcagGTCGTGGAGAAGACTATTCGTCCATGTCTGGTTGAGCTCAGTGAGGATCCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctgttcatctttgtttgtcttagactctaactgtgaacatcatttgccattcagGTCGTGGAGAAGACTATTCGTCCATGTCTGGTTGAGCTCAGTGAGGATCCTGATGTTGACGTGCGATTTTTCTCCAACCAAGCACTACAAGCAATTGATC
                         ctctaac  putative branch site (score: 2)
          tttgttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtattatacttgtgtttccatcctctgttcatctttgtttgtcttagactctaactgtgaacatcatttgccattcagGTCGTGGAGAAGACTATTCGTCCATGTCTGGTTGAGCTCAGTGAGGATCCTGATGTTGACGTGCGATTTTTCTCCAACCAAGCACTACAAGCAATTGATC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA