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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atacccctggaaatttggtattttctcaacatatccgccgaaggattctaacatttcttcattatggttgtttcttgtattatggataatttgattacagGGACTAGGAAAGGATGGGAGTGGAATGATAGAGCCTGTCCTGGCACAAGCCACAGAAAATAGGGCAGGACTTGGGAGTCAACAGAAGAAGTTGGATCCTA

Basic information

species Glycine max
transcript GLYMA08G35510.1
intron # 14
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G35510.1 (Glycine max), 3'ss of exon 14
lower sequence: Vv02s0012g00870.t01 (Vitis vinifera), 3'ss of exon 14
atacccctggaaatttggtattttct-caacatatccgccgaaggattctaacatttcttca-------ttatggttgtttcttgtattatggataatttgat-tacagGGACTAGGAAAGGATGGGAGTGGAATGATAGAGCCTGTCCTGGCACAAGCCACAGAAAATAGGGCAGGACTTGGGAGTCAACAGAAGAAGTTGGATCCTA
        |     | |||| ||| | |  ||      | |  ||| ||||||||| | |         || |  || ||  |||| ||     |  ||||||  ||||||  ||||||| ||||||||||| ||| ||||||| ||||  ||||||||||  || | ||| || |||||||||||||| |||||||||||||||||  
--------gaccggtaggtagtttttgctgcaagcatactgc-ggactctaacattgcatttggggattttttttttcttctttgttttcctattgttttgatgcacagGGTTTAGGAAAAGATGGGAGTGGCATGGTAGAGCCGGTCCAAGCACAAGCCATGGATAGTAGAGCTGGACTTGGGAGTCATCAGAAGAAGTTGGATCCAG
















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|207847207|gb|GD818166.1|GD818166
EST:     ACAATGTTGGTAATCGGATGCTTCGCAACATGGGCTGGCAGGAAGGATTG                         GGACTAGGAAAGGATGGGAGTGGAATGATAGAGCCTGTCCTGGCACAAGCC
genomic: ACAATGTTGGTAATCGGATGCTTCGCAACATGGGCTGGCAGGAAGGATTGgtaccgtttt ... ttgattacagGGACTAGGAAAGGATGGGAGTGGAATGATAGAGCCTGTCCTGGCACAAGCC
EST: gi|208274926|gb|GE067606.1|GE067606
EST:     ACAATGTTGGTAATCGGATGCTTCGCAACATGGGCTGGCAGGAAGGATTG                         GGACTAGGAAAGG
genomic: ACAATGTTGGTAATCGGATGCTTCGCAACATGGGCTGGCAGGAAGGATTGgtaccgtttt ... ttgattacagGGACTAGGAAAGG
EST: gi|193556740|gb|FK512285.1|FK512285
EST:     ACAATGTTGGTAATCGGATGCTTCGCAACATGGGCTGGCAGGAAGGATTG                         GGACTAGGAAAGGATGGGAGTGGAATGATAGAGCCTGTCCTGGCACAAGCC
genomic: ACAATGTTGGTAATCGGATGCTTCGCAACATGGGCTGGCAGGAAGGATTGgtaccgtttt ... ttgattacagGGACTAGGAAAGGATGGGAGTGGAATGATAGAGCCTGTCCTGGCACAAGCC
EST: gi|58016920|gb|CX703662.1|CX703662
EST:     ACAATGTTGGTAATCGGATGCTTCGCAACATGGGCTGGCAGGAAGGATTG                         GGACTAGGAAAGGATGGGAGTGGAATGATAGAGCCTGTCCTGGCACAAGCC
genomic: ACAATGTTGGTAATCGGATGCTTCGCAACATGGGCTGGCAGGAAGGATTGgtaccgtttt ... ttgattacagGGACTAGGAAAGGATGGGAGTGGAATGATAGAGCCTGTCCTGGCACAAGCC
EST: gi|207725964|gb|GD702750.1|GD702750
EST:     ACAATGTTGGTAATCGGATGCTTCGCAACATGGGCTGGCAGGAAGGATTG                         GGACTAGGAAAGGATGGGAGTGGAATGATAGAGCCTGTCCTGGCACA
genomic: ACAATGTTGGTAATCGGATGCTTCGCAACATGGGCTGGCAGGAAGGATTGgtaccgtttt ... ttgattacagGGACTAGGAAAGGATGGGAGTGGAATGATAGAGCCTGTCCTGGCACA
EST: gi|58016673|gb|CX703415.1|CX703415
EST:     ACAATGTTGGTAATCGGATGCTTCGCAACATGGGCTGGCAGGAAGGATTG                         GGACTAGGAAAGGATGGGAGTGGAATGATAGAGCCTGTCCTGGCACAAGCC
genomic: ACAATGTTGGTAATCGGATGCTTCGCAACATGGGCTGGCAGGAAGGATTGgtaccgtttt ... ttgattacagGGACTAGGAAAGGATGGGAGTGGAATGATAGAGCCTGTCCTGGCACAAGCC
EST: gi|207822419|gb|GD796552.1|GD796552
EST:     ACAATGTTGGTAATCGGATGCTTCGCAACATGGGCTGGCGGGAAGGATTG                         GGACTAGGAAAGGATGGGAGTGGAATGATAGAGCCTGTCCTGGCACAAGCC
genomic: ACAATGTTGGTAATCGGATGCTTCGCAACATGGGCTGGCAGGAAGGATTGgtaccgtttt ... ttgattacagGGACTAGGAAAGGATGGGAGTGGAATGATAGAGCCTGTCCTGGCACAAGCC
EST: gi|193475545|gb|FK440310.1|FK440310
EST:     ACAANGTTGGTAATCGGATGCTTCGCAACATGGGCTGGCAGGAAGGATTG                         GGACTAGGAAAGGATGGGAGTGGAATGATAGAGCCTGTCCTGGCACAAGCC
genomic: ACAATGTTGGTAATCGGATGCTTCGCAACATGGGCTGGCAGGAAGGATTGgtaccgtttt ... ttgattacagGGACTAGGAAAGGATGGGAGTGGAATGATAGAGCCTGTCCTGGCACAAGCC
EST: gi|18712552|gb|BM522660.1|BM522660
EST:     ACAATGTTGGTAATCGGATGCTTCGCAACATGGGCTGGCAGGAAGGATTG                         GGACTAGGAAAGGATGGGAGTGGAATGATAGAGCCTGTCCTGGCACAAGCC
genomic: ACAATGTTGGTAATCGGATGCTTCGCAACATGGGCTGGCAGGAAGGATTGgtaccgtttt ... ttgattacagGGACTAGGAAAGGATGGGAGTGGAATGATAGAGCCTGTCCTGGCACAAGCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttctaacatttcttcattatggttgtttcttgtattatggataatttgattacagGGACTAGGAAAGGATGGGAGTGGAATGATAGAGCCTGTCCTGGCACAAGCCACAGAAAATAGGGCAGGACTTGGGAGTCAACAGAAGAAGTTGGATCCTA
                                tattatggataattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
atacccctggaaatttggtattttctcaacatatccgccgaaggattctaacatttcttcattatggttgtttcttgtattatggataatttgattacagGGACTAGGAAAGGATGGGAGTGGAATGATAGAGCCTGTCCTGGCACAAGCCACAGAAAATAGGGCAGGACTTGGGAGTCAACAGAAGAAGTTGGATCCTA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGT
-tacccct
- - - - - - - - - - - - ctcaaca
- - - - - - - - - - - - - - - - - ccgccga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggttgtt