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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGGGTCAGAAATGCTGCATAGCTTGCTTGCTGGTGCTGCTCCTGAGCAGCAGAAAGAGATTCTCGGGGAGCATCTTTACATGCTTGTTCATAAACTAAAGgcataacaatctactattttctgttttttagttattgaatgttaaatttttaagttcttatgtatatttactgtgctatgttgagcag

Basic information

species Glycine max
transcript GLYMA19G37270.3
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G37270.3 (Glycine max), 5'ss of exon 9
lower sequence: Vv08s0007g04380.t01 (Vitis vinifera), 5'ss of exon 9
GGGGTCAGAAATGCTGCATAGCTTGCTTGCTGGTGCTGCTCCTGAGCAGCAGAAAGAGATTCTCGGGGAGCATCTTTACATGCTTGTTCATAAACTAAAGgcataacaatctactattttctgttttttagttattgaatgttaaatttttaagttcttatgt----atatttactgtgctatgttga-gcag--------
 || || || ||||||  |||| ||||||||| |||| ||||||||||||||||  ||||||| || |||||||| ||    ||||| || |||| ||||| |  || |  ||  || |    ||| |  |    || |  ||    |  ||  | | |   |    ||| ||||    || | || |  | |        
AGGATCGGAGATGCTGAGTAGCATGCTTGCTGCTGCTTCTCCTGAGCAGCAGAAGCAGATTCTGGGCGAGCATCTCTATCCCCTTGTCCAGAAACAAAAGgtaacactag-tagaatgtggaatttgtctgaacctgcacatttttataatacatccatgcattagaatagttacaaatctcttttcacactgttaaaatc
















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|208178428|gb|GD977009.1|GD977009
EST:     AGAAAGAGATTCTCGGGGAGCATCTTTACATGCTTGTTCATAAACTAAAG                         CCTACCCTAGCAGCAAAAATAACAGGGATGCTTCTGGAGATGGACAATGGA
genomic: AGAAAGAGATTCTCGGGGAGCATCTTTACATGCTTGTTCATAAACTAAAGgcataacaat ... tgttgagcagCCTACCCTAGCAGCAAAAATAACAGGGATGCTTCTGGAGATGGACAATGGA
EST: gi|193675910|gb|FK617362.1|FK617362
EST:     AGAAAGAGATTCTCGGGGAGCATCTTTACATGCTTGTTCATAAACTAAAG                         CCTACCCTAGCAGCAAAAATAACAGGGATGCTTTCTTGGAGATGGACAATT
genomic: AGAAAGAGATTCTCGGGGAGCATCTTTACATGCTTGTTCATAAACTAAAGgcataacaat ... tgttgagcagCCTACCCTAGCAGCAAAAATAACAGGGATGCTT-CT-GGAGATGGACAAT-
EST: gi|193480351|gb|FK445903.1|FK445903
EST:     AGAAAGAGATTCTCGGGGAGCATCTTTACATGCTTGTTCATAAACTAAAG                         CCTACCCTAGCAGC
genomic: AGAAAGAGATTCTCGGGGAGCATCTTTACATGCTTGTTCATAAACTAAAGgcataacaat ... tgttgagcagCCTACCCTAGCAGC
EST: gi|193522736|gb|FK480957.1|FK480957
EST:     AGAAAGAGATTCTCGGGGAGCATCTTTACNTGCTTGTTCATAAACTAAAG                         CCTACCCTAGCAGCAAAAATA-CAGGGATGCTTCTGGAGATGGACAATGGA
genomic: AGAAAGAGATTCTCGGGGAGCATCTTTACATGCTTGTTCATAAACTAAAGgcataacaat ... tgttgagcagCCTACCCTAGCAGCAAAAATAACAGGGATGCTTCTGGAGATGGACAATGGA
EST: gi|193686892|gb|FK632515.1|FK632515
EST:     AGAAAGAGATTCTCGGGGAGCATCTTTACATGCTTGTTCATAAACTAAAG                         CCTACCCTAGCAGCAAAAAT
genomic: AGAAAGAGATTCTCGGGGAGCATCTTTACATGCTTGTTCATAAACTAAAGgcataacaat ... tgttgagcagCCTACCCTAGCAGCAAAAAT
EST: gi|208249798|gb|GE045477.1|GE045477
EST:     AGAAAGAGATTCTCGGGGAGCATCTTTACATGCTTGTTCATAAACTAAAG                         CCTACCCTAGCAGCAAAAATAACAGGGATGCTTCTGGAGATGGACAATGGA
genomic: AGAAAGAGATTCTCGGGGAGCATCTTTACATGCTTGTTCATAAACTAAAGgcataacaat ... tgttgagcagCCTACCCTAGCAGCAAAAATAACAGGGATGCTTCTGGAGATGGACAATGGA
EST: gi|207746311|gb|GD722013.1|GD722013
EST:     AGAAAGAGATTCTCGGGGAGCATCTTTACATGCTTGTTCATAAACTAAAG                         CCTACCCTAGCAGCAAAAATA
genomic: AGAAAGAGATTCTCGGGGAGCATCTTTACATGCTTGTTCATAAACTAAAGgcataacaat ... tgttgagcagCCTACCCTAGCAGCAAAAATA
EST: gi|208047925|gb|GD847836.1|GD847836
EST:     AGAAAGAGATTCTCGGGGAGCATCTTTACATGCTTGTTCATAAACTAAAG                         CCTACCCTAGCAGCAAAAATAACAGGGATGCTTCTGGAGATGGACAATGGA
genomic: AGAAAGAGATTCTCGGGGAGCATCTTTACATGCTTGTTCATAAACTAAAGgcataacaat ... tgttgagcagCCTACCCTAGCAGCAAAAATAACAGGGATGCTTCTGGAGATGGACAATGGA
EST: gi|208283696|gb|GE085938.1|GE085938
EST:     AGAAAGAGATTCTCGGGGAGCATCTTTACATGCTTGTTCATAAACTAAAG                         CCTACCCTAGCAGCAAAAATA-CAGGGATGCTTCTGGAGATGGACAATGGA
genomic: AGAAAGAGATTCTCGGGGAGCATCTTTACATGCTTGTTCATAAACTAAAGgcataacaat ... tgttgagcagCCTACCCTAGCAGCAAAAATAACAGGGATGCTTCTGGAGATGGACAATGGA
EST: gi|208178924|gb|GD975349.1|GD975349
EST:     AGAAAGAGATTCTCGGGGANCATCTTTACATGCTTGTTCATAAACTAAAG                         CCTACCCTAGCAGCAAAAATA-CAGGGATGCTTCTGGAGATGGACAATGGA
genomic: AGAAAGAGATTCTCGGGGAGCATCTTTACATGCTTGTTCATAAACTAAAGgcataacaat ... tgttgagcagCCTACCCTAGCAGCAAAAATAACAGGGATGCTTCTGGAGATGGACAATGGA
EST: gi|193435082|gb|FK400254.1|FK400254
EST:     GGGAGCATCTTTACATGTCTTTGTTCATAAACTAAAG                         CCTACCCTAGCAGCAAAAATAACAGGGATGCTTCTGGAGATGGACAATGGA
genomic: GGGAGCATCTTTACATG-C-TTGTTCATAAACTAAAGgcataacaat ... tgttgagcagCCTACCCTAGCAGCAAAAATAACAGGGATGCTTCTGGAGATGGACAATGGA
EST: gi|208230436|gb|GE032177.1|GE032177
EST:     AGAAAGAGATTCTCGGGGAGCATCTTTACATGCTTGTTCATAAACTAAAG                         CCTACCCTAGCAGCAAAAATAACAGGGATGCTTCTGGAGATGGACAATGGA
genomic: AGAAAGAGATTCTCGGGGAGCATCTTTACATGCTTGTTCATAAACTAAAGgcataacaat ... tgttgagcagCCTACCCTAGCAGCAAAAATAACAGGGATGCTTCTGGAGATGGACAATGGA
EST: gi|207830664|gb|GD804204.1|GD804204
EST:     ATCTTTACATGCTTGTTCATAAACTAAAG                         CCTACCCTAGCAGCAAAAATAACAGGGATGCTTCTGGAGATGGACAATGGA
genomic: ATCTTTACATGCTTGTTCATAAACTAAAGgcataacaat ... tgttgagcagCCTACCCTAGCAGCAAAAATAACAGGGATGCTTCTGGAGATGGACAATGGA
EST: gi|208097654|gb|GD891345.1|GD891345
EST:     GAAAGAGATTCTCGGGGGANCATCTTTACATGCTTGTTCATAAACTAAAG                         CCTACCCTAGCAGCAAAAATAACAGGGATGTCTTC
genomic: GAAAGAGATTCTCGGGG-AGCATCTTTACATGCTTGTTCATAAACTAAAGgcataacaat ... tgttgagcagCCTACCCTAGCAGCAAAAATAACAGGGATG-CTTC
EST: gi|193401815|gb|FK365928.1|FK365928
EST:     AGAAAGAGATTCTCGGGGAGCATCTTTACATGCTTGTTCATAAACTAAAG                         CCTACCCTAGCAGCAAAAATAACAGGGATGCTTCTGGAGATGGACAATGGA
genomic: AGAAAGAGATTCTCGGGGAGCATCTTTACATGCTTGTTCATAAACTAAAGgcataacaat ... tgttgagcagCCTACCCTAGCAGCAAAAATAACAGGGATGCTTCTGGAGATGGACAATGGA
EST: gi|193675618|gb|FK614802.1|FK614802
EST:     AGAAAGAGATTCTCGGGGAGCATCTTTACATGCTTGTTCATAAACTAAAG                         CCTACCCTAGCAGCAAAAATAACAGGGATGCTTCTGGAGATGGACAATGGA
genomic: AGAAAGAGATTCTCGGGGAGCATCTTTACATGCTTGTTCATAAACTAAAGgcataacaat ... tgttgagcagCCTACCCTAGCAGCAAAAATAACAGGGATGCTTCTGGAGATGGACAATGGA
EST: gi|193463216|gb|FK428638.1|FK428638
EST:     AGAAAGAGATTCTCGGGGAGCATCTTTACATGCTTGTTCATAAACTAAAG                         CCTACCCTAGCAGCAAAAATA-CAGGGATGCTTCTGG
genomic: AGAAAGAGATTCTCGGGGAGCATCTTTACATGCTTGTTCATAAACTAAAGgcataacaat ... tgttgagcagCCTACCCTAGCAGCAAAAATAACAGGGATGCTTCTGG
EST: gi|208117244|gb|GD918158.1|GD918158
EST:     AGAAAGAGATTCTCGGGGAGCATCTTTACATGCTTGTTCATAAACTAAAG                         CCTACCCTAGCAG
genomic: AGAAAGAGATTCTCGGGGAGCATCTTTACATGCTTGTTCATAAACTAAAGgcataacaat ... tgttgagcagCCTACCCTAGCAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGGGTCAGAAATGCTGCATAGCTTGCTTGCTGGTGCTGCTCCTGAGCAGCAGAAAGAGATTCTCGGGGAGCATCTTTACATGCTTGTTCATAAACTAAAGgcataacaatctactattttctgttttttagttattgaatgttaaatttttaagttcttatgtatatttactgtgctatgttgagcag

- - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA