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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatattacttctgcatgtaattattaaactcttggggtagtgttatttcctcacttccattatttaacattttggctgatacttgtaactcttgcagCACCAAGTCTGAGGGTAAATTGACATCTCTGGATCAGTACATATCTAGAATGAAAACTGGGCAGAAGGATATCTTTTACATAACTGGAACCAGCAAAGAA

Basic information

species Glycine max
transcript GLYMA14G40320.1
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|15661681|gb|BI699052.1|BI699052
EST:     GAGGATGCCACCAACAGAAATCGTTTGGCAAAACTGCTCAGATTTGAGAG                         CACCAAGTCTGAGGGTAAATTGACATCTCTGGATCAGTACATATCTAGAAT
genomic: GAGGATGCCACCAACAGAAATCGTTTGGCAAAACTGCTCAGATTTGAGAGgtatattact ... actcttgcagCACCAAGTCTGAGGGTAAATTGACATCTCTGGATCAGTACATATCTAGAAT
EST: gi|192301679|gb|FG997621.1|FG997621
EST:     GAGGATGCCACCAACAGAAATCGTTTGGCAAAACTGCTCAGATTTGAGAG                         CACCAAGTCTGAGGGTAAATTGACATCTCTGGATCAGTACATATCTAGAAT
genomic: GAGGATGCCACCAACAGAAATCGTTTGGCAAAACTGCTCAGATTTGAGAGgtatattact ... actcttgcagCACCAAGTCTGAGGGTAAATTGACATCTCTGGATCAGTACATATCTAGAAT
EST: gi|193550593|gb|FK508890.1|FK508890
EST:     GAGGATGCCACCAACAGAAATCGTTTGGCAAAACTGCTCAGATTTGAGAG                         CACCAAGTCTGAGGGTAAATTGACATCTCTGGATCAGTACATATCTAGAAT
genomic: GAGGATGCCACCAACAGAAATCGTTTGGCAAAACTGCTCAGATTTGAGAGgtatattact ... actcttgcagCACCAAGTCTGAGGGTAAATTGACATCTCTGGATCAGTACATATCTAGAAT
EST: gi|192313365|gb|FK005137.1|FK005137
EST:     GAGGATGCCACCAACAGAAATCGTTTGGCAAAACTGCTCAGATTTGAGAG                         CACCAAGTCTGAGGGTAAATTGACATCTCTGGATCAGTACATATCTAGAAT
genomic: GAGGATGCCACCAACAGAAATCGTTTGGCAAAACTGCTCAGATTTGAGAGgtatattact ... actcttgcagCACCAAGTCTGAGGGTAAATTGACATCTCTGGATCAGTACATATCTAGAAT
EST: gi|192313364|gb|FK005136.1|FK005136
EST:     GAGGATGCCACCAACAGAAATCGTTTGGCAAAACTGCTCAGATTTGAGAG                         CACCAAGTCTGAGGGTAAATTGACATCTCTGGATCAGTACATATCTAGAAT
genomic: GAGGATGCCACCAACAGAAATCGTTTGGCAAAACTGCTCAGATTTGAGAGgtatattact ... actcttgcagCACCAAGTCTGAGGGTAAATTGACATCTCTGGATCAGTACATATCTAGAAT
EST: gi|193593679|gb|FK546687.1|FK546687
EST:     GAGGATGCCACCAACAGAAATCGTTTGGCAAAACTGCTCAGATTTGAGAG                         CACCAAGTCTGAGGGTAAATTGACATCTCTGGATCAGTACATATCTAGAAT
genomic: GAGGATGCCACCAACAGAAATCGTTTGGCAAAACTGCTCAGATTTGAGAGgtatattact ... actcttgcagCACCAAGTCTGAGGGTAAATTGACATCTCTGGATCAGTACATATCTAGAAT
EST: gi|7925492|gb|AW831518.1|AW831518
EST:     GAGGATGCCACCAACAGAAATCGTTTGGCAAAACTGCTCAGATTTGAGAG                         CACCAAGTCTGAGGGTAAATTGACATCTCTGGATCAGTACATATCTAGAAT
genomic: GAGGATGCCACCAACAGAAATCGTTTGGCAAAACTGCTCAGATTTGAGAGgtatattact ... actcttgcagCACCAAGTCTGAGGGTAAATTGACATCTCTGGATCAGTACATATCTAGAAT
EST: gi|208076518|gb|GD874383.1|GD874383
EST:     GAGGATGCCACCAACAGAAATCGTTTGGCAAAACTGCTCAGATTTGAGAG                         CACCAAGTCTGAGGGTAAATTGACATCTCTGGATCAGTACATATCTAGAAT
genomic: GAGGATGCCACCAACAGAAATCGTTTGGCAAAACTGCTCAGATTTGAGAGgtatattact ... actcttgcagCACCAAGTCTGAGGGTAAATTGACATCTCTGGATCAGTACATATCTAGAAT
EST: gi|208324369|gb|GE120588.1|GE120588
EST:     GAGGATGCCACCAACAGAAATCGTTTGGCAAAACTGCTCAGATTTGAGAG                         CACCAAGTCTGAGGGTAAATTGACATCTCTGGATCAGTACATATCTAGAAT
genomic: GAGGATGCCACCAACAGAAATCGTTTGGCAAAACTGCTCAGATTTGAGAGgtatattact ... actcttgcagCACCAAGTCTGAGGGTAAATTGACATCTCTGGATCAGTACATATCTAGAAT
EST: gi|23059035|gb|BU578351.1|BU578351
EST:     GAGGATGCCACCAACAGAAATCGTTTGGCAAAACTGCTCAGATTTGAGAG                         CACCAAGTCTGAGGGTAAATTGACATCTC
genomic: GAGGATGCCACCAACAGAAATCGTTTGGCAAAACTGCTCAGATTTGAGAGgtatattact ... actcttgcagCACCAAGTCTGAGGGTAAATTGACATCTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttatttcctcacttccattatttaacattttggctgatacttgtaactcttgcagCACCAAGTCTGAGGGTAAATTGACATCTCTGGATCAGTACATATCTAGAATGAAAACTGGGCAGAAGGATATCTTTTACATAACTGGAACCAGCAAAGAA
                                        ttgtaac  putative branch site (score: 2)
                                              ctcttgc  CT-rich tract
                attatttaacatttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatattacttctgcatgtaattattaaactcttggggtagtgttatttcctcacttccattatttaacattttggctgatacttgtaactcttgcagCACCAAGTCTGAGGGTAAATTGACATCTCTGGATCAGTACATATCTAGAATGAAAACTGGGCAGAAGGATATCTTTTACATAACTGGAACCAGCAAAGAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA