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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGCTTGGGACTGATGAACTGAATGCATATCTTAATAAGTATCATCTGGAGCTTGATCCTCAACTTGATGCACTTGTTGGAAGgtatcatcaaacatttgatcttacgtatttcactgtaaaattgatttatttattattaaatatgaacttctgtgggagactgagagtgtaacattacatc...

Basic information

species Glycine max
transcript GLYMA11G05340.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G05340.2 (Glycine max), 5'ss of exon 7
lower sequence: Vv18s0001g09320.t01 (Vitis vinifera), 5'ss of exon 7
GTGCTTGGGACTGATGAACTGAATGCATATCTTAATAAGTATCATCTGGAGCTTGATCCTCAACTTGATGCACTTGTTGGAAGgtatcatcaaacatttgatcttacgtatttcactgtaaaattgatttatttattattaaatatgaacttctgtgggagactgagagtgtaacattacatc-----
|| |||||||| ||||| || ||||||||| | || || |||| | | ||||||||||| ||||||||||| |||||||||||||||     |||||  |   |||| ||||||  | |  |       |  | ||| |||    |  |||||| ||  |      |   |  || ||  |||     
GTTCTTGGGACAGATGAGCTAAATGCATATTTGAACAAATATCGTTTAGAGCTTGATCCACAACTTGATGCTCTTGTTGGAAGgtatatctgaacatgag---ttac-tatttctgtttccagcatgcatcatgatt-ttattcttttacttctttgaaaacacagggaagccaccttgtatccatta

upper sequence: GLYMA11G05340.2 (Glycine max), 5'ss of exon 7
lower sequence: Vv07s0129g00410.t01 (Vitis vinifera), 5'ss of exon 7
GTGCTTGGGACTGATGAACTGAATGCATATCTTAATAAGTATCATCTGGAGCTTGATCCTCAACTTGATGCACTTGTTGGAAGgtatcatcaa--------------acatttgatcttacgtatttcactgtaaaattgatttatttattattaaatatgaacttctgtgggagactga--gagtgt-aacattacatc---------------------------------------------------------------------------------
|| ||||| || |||||  | ||||||||||| || || |||| | | ||||| ||||||||||||||||| |||||||| ||||||  ||||               ||| || |    |   | |||||  |  |  | |    |||   | |||||| | |||| ||||||   | |  || ||| ||  || |||                                                                                  
GTACTTGGTACAGATGAGTTAAATGCATATCTGAACAAATATCGTTTAGAGCTCGATCCTCAACTTGATGCTCTTGTTGGGAGgtatgttcaacgtgaatttctccagcatgtggttaatccactatcactcaatgaaagctaggattacattaaaatattaccttccgtgggaacataaaggaatgtgaaggtttcattcttctccataagtaagatttaagtcacaccacaaacaagtgatatcaacagaaattaatgtgtcagttcatttgtctgcag
















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|208234270|gb|GE033257.1|GE033257
EST:     AATAAGTATCATCTGGAGCTTGATCCTCAACTTGATGCACTTGTTGGAAG                         ACACAGTCGAAAACCCTGGTCCAAATTTATCAATGCAGATAATCAGCATCT
genomic: AATAAGTATCATCTGGAGCTTGATCCTCAACTTGATGCACTTGTTGGAAGgtatcatcaa ... tctgttgcagACACAGTCGAAAACCCTGGTCCAAATTTATCAATGCAGATAATCAGCATCT
EST: gi|208215776|gb|GE008544.1|GE008544
EST:     AATAAGTATCATCTGGAGCTTGATCCTCAACTTGATGCACTTGTTGGAAG                         ACACAGTCGAAAACCCTGGTCCAAATTTATCAATGCAGATAATCAGCAT
genomic: AATAAGTATCATCTGGAGCTTGATCCTCAACTTGATGCACTTGTTGGAAGgtatcatcaa ... tctgttgcagACACAGTCGAAAACCCTGGTCCAAATTTATCAATGCAGATAATCAGCAT
EST: gi|213605531|gb|DB974274.1|DB974274
EST:     GGAGCTTGATCCTCAACTTGATGCACTTGTTGGAAG                         ACACAGTCGAAAACCTTGGTCCAAATTTATCAATGCAGATAATCAGCATCT
genomic: GGAGCTTGATCCTCAACTTGATGCACTTGTTGGAAGgtatcatcaa ... tctgttgcagACACAGTCGAAAACCCTGGTCCAAATTTATCAATGCAGATAATCAGCATCT
EST: gi|10233590|gb|BE802478.1|BE802478
EST:     AATAAGTATCATCTGGAGCTTGATCCTCAACTTGATGCACTTGTTGGAAG                         ACACAGTCGAAAGCCCTGGTCTAAATTCATCAATGCAGATAATCAGCATCT
genomic: AATAAGTATCATCTGGAGCTTGATCCTCAACTTGATGCACTTGTTGGAAGgtatcatcaa ... tctgttgcagACACAGTCGAAAACCCTGGTCCAAATTTATCAATGCAGATAATCAGCATCT
EST: gi|38193563|gb|CF922769.1|CF922769
EST:     AATAAGTATCATCTGGAGCTTGATCCTCAACTTGATGCACTTGTTGGAAG                         ACACAGTCGAAAACCCTGGTCCAAATTTATCAATGCAGATAATCAGCATCT
genomic: AATAAGTATCATCTGGAGCTTGATCCTCAACTTGATGCACTTGTTGGAAGgtatcatcaa ... tctgttgcagACACAGTCGAAAACCCTGGTCCAAATTTATCAATGCAGATAATCAGCATCT
EST: gi|214009784|gb|DB986911.1|DB986911
EST:     AATAAGTATCATCTGGAGCTTGATCCTCAACTTGATGCACTTGTTGGAAG                         ACACAGTCGAAAACCCTGGTCCAAATTTATCAATGCAGATAATCAGCATCT
genomic: AATAAGTATCATCTGGAGCTTGATCCTCAACTTGATGCACTTGTTGGAAGgtatcatcaa ... tctgttgcagACACAGTCGAAAACCCTGGTCCAAATTTATCAATGCAGATAATCAGCATCT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTGCTTGGGACTGATGAACTGAATGCATATCTTAATAAGTATCATCTGGAGCTTGATCCTCAACTTGATGCACTTGTTGGAAGgtatcatcaaacatttgatcttacgtatttcactgtaaaattgatttatttattattaaatatgaacttctgtgggagactgagagtgtaacattacatc

- - - - - - - - - - - - - - - - - - - - - - -  GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gtgggag