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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtttctttatttgatcataaggtcattttttttctcgagacattatagaactgtgtctcttatgtcccacattttttgtttgatgaaatttgcagCTTTGACTTTCAATGATCTTGGAATTGTTCCTCACAAGCTGAAGGGATACCCTATTGAGTTTCTTATCTCATATAGGAAAGGAGGCCCACAATTTGGTTC

Basic information

species Glycine max
transcript GLYMA13G18950.2
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G18950.2 (Glycine max), 3'ss of exon 11
lower sequence: Vv07s0005g04440.t01 (Vitis vinifera), 3'ss of exon 11
--------------------------gtaagtttctttatttgatcataaggtc--attttttttctcgagacattatagaactgtgtctcttatgtcccacattttttgtttgatgaaatttgcagCTTTGACTTTCAATGATCTTGGAATTGTTCCTCACAAGCTGAAGGGATACCCTATTGAGTTTCTTATCTCATATAGGAAAGGAGGCCCACAATTTGGTTC
                           | |   ||||| ||| |   | || |   | |    || ||  |  ||  | |     | ||| | ||  ||  |||| |||  ||| ||  ||| |||||||| |||||  |||||||||| ||||| ||||| ||||||||||| |||||||||||||| ||| |||||||| | ||||| |||||||| ||||||||
gttggtatagtagttttaagcgagatcttaccatctttcttttaatgtcagatatgaataaacttttccggttatggttgtctcat-tctttcattgcctccattattt--ttggtggtatt-gcagCTTTAACTTTTGATGATCTTGGGATTGTACCTCATAAGCTGAAGGGTTACCCTATTGAGTTCCTTCTCTCATATCGCAAAGGTGGCCCACAGTTTGGTTC
















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|209703803|gb|BW670712.1|BW670712
EST:     TCTGGATAAGATCCAGGCTTTGACTACAGATACCGTTGTTTCAGAAAATG                         CTTTGACTTTCAATGATCTTGGAATTGTTCCTCACAAGCTGAAGGGATACC
genomic: TCTGGATAAGATCCAGGCTTTGACTACAGATACCGTTGTTTCAGAAAATGgtaagtttct ... aaatttgcagCTTTGACTTTCAATGATCTTGGAATTGTTCCTCACAAGCTGAAGGGATACC
EST: gi|16344888|gb|BI970483.1|BI970483
EST:     TCTGGATAAGATCCAGGCTTTGACTACAGATACCGTTGTTTCAGAAAATG                         CTTTGACTTTCAATGATCTTGGAATTGTTCCTCACAAGCTGAAGGGATACC
genomic: TCTGGATAAGATCCAGGCTTTGACTACAGATACCGTTGTTTCAGAAAATGgtaagtttct ... aaatttgcagCTTTGACTTTCAATGATCTTGGAATTGTTCCTCACAAGCTGAAGGGATACC
EST: gi|58018297|gb|CX705039.1|CX705039
EST:     TCTGGATAAGATCCAGGCTTTGACTACAGATACCGTTGTTTCAGAAAATG                         CTTTGACTTTCAATGATCTTGGAATTGTTCCTCACAAGCTGAAGGGATACC
genomic: TCTGGATAAGATCCAGGCTTTGACTACAGATACCGTTGTTTCAGAAAATGgtaagtttct ... aaatttgcagCTTTGACTTTCAATGATCTTGGAATTGTTCCTCACAAGCTGAAGGGATACC
EST: gi|213595511|gb|DB977919.1|DB977919
EST:     TCTGGATAAGATCCAGGCTTTGACTACAGATACCGTTGTTTCAGAAAATG                         CTTTGACTTTCAATGATCTTGGAATTGTTCCTCACAAGCTGAAGGGATACC
genomic: TCTGGATAAGATCCAGGCTTTGACTACAGATACCGTTGTTTCAGAAAATGgtaagtttct ... aaatttgcagCTTTGACTTTCAATGATCTTGGAATTGTTCCTCACAAGCTGAAGGGATACC
EST: gi|308222711|gb|HO760621.1|HO760621
EST:     TCTGGATAAGATCCAGGCTTTGACTACAGATACCGTTGTTTCAGAAAATG                         CTTTGACTTTCAATGATCTTGGAATTGTTCCTCACAAGCTGAAGGGATACC
genomic: TCTGGATAAGATCCAGGCTTTGACTACAGATACCGTTGTTTCAGAAAATGgtaagtttct ... aaatttgcagCTTTGACTTTCAATGATCTTGGAATTGTTCCTCACAAGCTGAAGGGATACC
EST: gi|209718616|gb|BW662708.1|BW662708
EST:     TCTGGATAAGATCCAGGCTTTGACTACAGATACCGTTGTTTCAGAAAATG                         CTTTGACTTTCAATGATCTTGGAATTGTTCCTCACAAGCTGAAGGGATACC
genomic: TCTGGATAAGATCCAGGCTTTGACTACAGATACCGTTGTTTCAGAAAATGgtaagtttct ... aaatttgcagCTTTGACTTTCAATGATCTTGGAATTGTTCCTCACAAGCTGAAGGGATACC
EST: gi|7925775|gb|AW831801.1|AW831801
EST:     TCTGGATAAGATCCAGGCTTTGACTACAGATACCGTTGTTTCAGAAAATG                         CTTTGACTTTCAATGATCTTGGAATTGTTCCTCACAAGCTGAAGGGATACC
genomic: TCTGGATAAGATCCAGGCTTTGACTACAGATACCGTTGTTTCAGAAAATGgtaagtttct ... aaatttgcagCTTTGACTTTCAATGATCTTGGAATTGTTCCTCACAAGCTGAAGGGATACC
EST: gi|58015889|gb|CX702631.1|CX702631
EST:     TCTGGATAAGATCCAGGCTTTGACTACAGATACCGTTGTTTCAGAAAATG                         CTTTGACTTTCAATGATCTTGGAATTGTTCCTCACAAGCTGAAGGGATACC
genomic: TCTGGATAAGATCCAGGCTTTGACTACAGATACCGTTGTTTCAGAAAATGgtaagtttct ... aaatttgcagCTTTGACTTTCAATGATCTTGGAATTGTTCCTCACAAGCTGAAGGGATACC
EST: gi|10232656|gb|BE801544.1|BE801544
EST:     TCTGGATAAGATCCAGGCTTTGACTACAGATACCGTTGTTTCAGAAAATG                         CTTTGACTTTCAATGATCTTGGAATTGTTCCTCACAAGCTGAAGGGATACC
genomic: TCTGGATAAGATCCAGGCTTTGACTACAGATACCGTTGTTTCAGAAAATGgtaagtttct ... aaatttgcagCTTTGACTTTCAATGATCTTGGAATTGTTCCTCACAAGCTGAAGGGATACC
EST: gi|254347888|gb|GR854137.1|GR854137
EST:     TCTGGATAAGATCCAGGCTTTGACTACAGATACCGTTGTTTCAGAAAATG                         CTTTGACTTTCAATGATCTTGGAATTGTTCCTCACAAGCTGAAGGGATACC
genomic: TCTGGATAAGATCCAGGCTTTGACTACAGATACCGTTGTTTCAGAAAATGgtaagtttct ... aaatttgcagCTTTGACTTTCAATGATCTTGGAATTGTTCCTCACAAGCTGAAGGGATACC
EST: gi|58016827|gb|CX703569.1|CX703569
EST:     TCTGGATAAGATCCAGGCTTTGACTACAGATACCGTTGTTTCAGAAAATG                         CTTTGACTTTCAATGATCTTGGAATTGTTCCTCACAAGCTGAAGGGATACC
genomic: TCTGGATAAGATCCAGGCTTTGACTACAGATACCGTTGTTTCAGAAAATGgtaagtttct ... aaatttgcagCTTTGACTTTCAATGATCTTGGAATTGTTCCTCACAAGCTGAAGGGATACC
EST: gi|58015071|gb|CX701813.1|CX701813
EST:     TCTGGATAAGATCCAGGCTTTGACTACAGATACCGTTGTTTCAGAAAATG                         CTTTGACTTTCAATGATCTTGGAATTGTTCCTCACAAGCTGAAGGGATACC
genomic: TCTGGATAAGATCCAGGCTTTGACTACAGATACCGTTGTTTCAGAAAATGgtaagtttct ... aaatttgcagCTTTGACTTTCAATGATCTTGGAATTGTTCCTCACAAGCTGAAGGGATACC
EST: gi|192298922|gb|FG987667.1|FG987667
EST:     TCTGGATAAGATCCAGGCTTTGACTACAGATACCGTTGTTTCAGAAAATG                         CTTTGACTTTCAATGATCTTGGAATTGTTCCTCACAAGCTGAAGGGATACC
genomic: TCTGGATAAGATCCAGGCTTTGACTACAGATACCGTTGTTTCAGAAAATGgtaagtttct ... aaatttgcagCTTTGACTTTCAATGATCTTGGAATTGTTCCTCACAAGCTGAAGGGATACC
EST: gi|209714365|gb|BW677065.1|BW677065
EST:     TCTGGATAAGATCCAGGCTTTGACTACAGATACCGTTGTTTCAGAAAATG                         CTTTGACTTTCAATGATCTTGGAATTGTTCCTCACAAGCTGAAGGGATACC
genomic: TCTGGATAAGATCCAGGCTTTGACTACAGATACCGTTGTTTCAGAAAATGgtaagtttct ... aaatttgcagCTTTGACTTTCAATGATCTTGGAATTGTTCCTCACAAGCTGAAGGGATACC
EST: gi|193536460|gb|FK489210.1|FK489210
EST:     TCTGGATAAGATCCAGGCTTTGACTACAGATACCGTTGTTTCAGAAAATG                         CTTTGACTTTCAATGATCTTGGAATTGTTCCTCACAAGCTGAAGGGAATAC
genomic: TCTGGATAAGATCCAGGCTTTGACTACAGATACCGTTGTTTCAGAAAATGgtaagtttct ... aaatttgcagCTTTGACTTTCAATGATCTTGGAATTGTTCCTCACAAGCTGAAGGGA-TAC
EST: gi|192301727|gb|FG997641.1|FG997641
EST:     TCTGGATAAGATCCAGGCTTTGACTACAGATACCGTTGTTTCAGAAAATG                         CTTTGACTTTCAATGATCTTGGAATTGTTCCTCACAAGCTGAAGGAATACC
genomic: TCTGGATAAGATCCAGGCTTTGACTACAGATACCGTTGTTTCAGAAAATGgtaagtttct ... aaatttgcagCTTTGACTTTCAATGATCTTGGAATTGTTCCTCACAAGCTGAAGGGATACC
EST: gi|193434432|gb|FK401130.1|FK401130
EST:     TCTGGANAAGATCCAGGCTTTGACTACAGATACCGTTGTTTCAGAAAATG                         CTTTGACTTTCAATGATCTTGGAATTGTTCCTCACAAGCTGAAGGGATACC
genomic: TCTGGATAAGATCCAGGCTTTGACTACAGATACCGTTGTTTCAGAAAATGgtaagtttct ... aaatttgcagCTTTGACTTTCAATGATCTTGGAATTGTTCCTCACAAGCTGAAGGGATACC
EST: gi|192316340|gb|FK011685.1|FK011685
EST:     TCTGGATAAGATCCAGGCTTTGACTACAGATACCGTTGTTTCAGAAAATG                         CTTTGACTTTCAATGATCTTGGAATTGTTCCTCACAAGCTGAAGGGATACC
genomic: TCTGGATAAGATCCAGGCTTTGACTACAGATACCGTTGTTTCAGAAAATGgtaagtttct ... aaatttgcagCTTTGACTTTCAATGATCTTGGAATTGTTCCTCACAAGCTGAAGGGATACC
EST: gi|192327146|gb|FK015538.1|FK015538
EST:     TCTGGATAAGATCCAGGCTTTGACTACAGATACCGTTGTTTCAGAAAATG                         CTTTGACTTTCAATGATCTTGGAATTGTTCCTCACAAGCTGAAGGGATACC
genomic: TCTGGATAAGATCCAGGCTTTGACTACAGATACCGTTGTTTCAGAAAATGgtaagtttct ... aaatttgcagCTTTGACTTTCAATGATCTTGGAATTGTTCCTCACAAGCTGAAGGGATACC
EST: gi|208207915|gb|GE002908.1|GE002908
EST:     TCTGGATAAGATCCAGGCTTTGACTACAGATACCGTTGTTTCAGAAAATG                         CTTTGACTTTCAATGATCTTGG
genomic: TCTGGATAAGATCCAGGCTTTGACTACAGATACCGTTGTTTCAGAAAATGgtaagtttct ... aaatttgcagCTTTGACTTTCAATGATCTTGG
EST: gi|15661683|gb|BI699054.1|BI699054
EST:     TCTGGATAAGATCCAGGCTTTGACTACAGATACCGTTGTTTCAGAAAATG                         CTTTGACTTTCAATGATCTTGGAATTGTTCCTCACAAGCTGAAGGGATACC
genomic: TCTGGATAAGATCCAGGCTTTGACTACAGATACCGTTGTTTCAGAAAATGgtaagtttct ... aaatttgcagCTTTGACTTTCAATGATCTTGGAATTGTTCCTCACAAGCTGAAGGGATACC
EST: gi|209709596|gb|BW661923.1|BW661923
EST:     TCTGGATAAGATCCAGGCTTTGACTACAGATACCGTTGTTTCAGAAAATG                         CTTTGACTTTCAATGATCTTGGAATTGTTCCTCACAAGCTGAAGGGATACC
genomic: TCTGGATAAGATCCAGGCTTTGACTACAGATACCGTTGTTTCAGAAAATGgtaagtttct ... aaatttgcagCTTTGACTTTCAATGATCTTGGAATTGTTCCTCACAAGCTGAAGGGATACC
EST: gi|192316341|gb|FK011686.1|FK011686
EST:     TCTGGATAAGATCCAGGCTTTGACTACAGATACCGTTGTTTCAGAAAATG                         CTTTGACTTTCAATGATCTTGGAATTGTTCCTCACAAGCTGAAGGGATACC
genomic: TCTGGATAAGATCCAGGCTTTGACTACAGATACCGTTGTTTCAGAAAATGgtaagtttct ... aaatttgcagCTTTGACTTTCAATGATCTTGGAATTGTTCCTCACAAGCTGAAGGGATACC
EST: gi|254323287|gb|GR840092.1|GR840092
EST:     TCTGGATAAGATCCAGGCTTTGACTACAGATACCGTTGTTTCAGAAAATG                         CTTTGACTTTCAATGATCTTGGAATTGTTCCTCACAAGCTGAAGGGATACC
genomic: TCTGGATAAGATCCAGGCTTTGACTACAGATACCGTTGTTTCAGAAAATGgtaagtttct ... aaatttgcagCTTTGACTTTCAATGATCTTGGAATTGTTCCTCACAAGCTGAAGGGATACC
EST: gi|8669762|gb|BE190869.1|BE190869
EST:     TCTGGATAAGATCCAGGCTTTGACTACAGATACCGTTGTTTCAGAAAATG                         CTTTGACTCTCAATGATCTTGGAATTGTTCCTCACAAGCTGAAGGGATACC
genomic: TCTGGATAAGATCCAGGCTTTGACTACAGATACCGTTGTTTCAGAAAATGgtaagtttct ... aaatttgcagCTTTGACTTTCAATGATCTTGGAATTGTTCCTCACAAGCTGAAGGGATACC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cattatagaactgtgtctcttatgtcccacattttttgtttgatgaaatttgcagCTTTGACTTTCAATGATCTTGGAATTGTTCCTCACAAGCTGAAGGGATACCCTATTGAGTTTCTTATCTCATATAGGAAAGGAGGCCCACAATTTGGTTC
                                     gtttgat  putative branch site (score: 5)
                              attttttgtttgatga  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtttctttatttgatcataaggtcattttttttctcgagacattatagaactgtgtctcttatgtcccacattttttgtttgatgaaatttgcagCTTTGACTTTCAATGATCTTGGAATTGTTCCTCACAAGCTGAAGGGATACCCTATTGAGTTTCTTATCTCATATAGGAAAGGAGGCCCACAATTTGGTTC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG