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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCAGAGCAGAAGTGAGAAGAAGAGCCGAAAAGCAATGTTGAAGTTGGGACTGAAACCTGTTACTGGCGTTAGTAGGGTCACAATCAAGAGGACAAAGAATgtgagcattgttattgttctatctgtgatctatctgggaggcggatggattttaaccaatttgttttatgcattag

Basic information

species Glycine max
transcript GLYMA06G14260.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G14260.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv16s0098g00830.t01 (Vitis vinifera), 5'ss of exon 3
GCAGAGCAGAAGTGAGAAGAAGAGCCGAAAAGCAATGTTGAAGTTGGGACTGAAACCTGTTACTGGCGTTAGTAGGGTCACAATCAAGAGGACAAAGAATgtgag-cattgttattgttctatctgtg-atctatctgggaggcggatggattttaaccaatttgttttatgcattag---
||||||||||||||||||||||||||| || |||||||||||| | ||  ||||||| |||||||| ||| | |||||||| || ||||| ||||| ||||| |    ||||     |||| |   || ||  |  ||      | |||   |||| ||| ||| |  |  || || |   
GCAGAGCAGAAGTGAGAAGAAGAGCCGCAAGGCAATGTTGAAGCTCGGCATGAAACCCGTTACTGGTGTTGGAAGGGTCACCATTAAGAGAACAAAAAATgtaaaattttgtctgatttctgttcttgtattcacttgtatcatgaatgttcttta-ccagtttttcctgggc-ttggcag
















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|31458947|gb|CD400975.1|CD400975
EST:     TGAAACCTGTTACTGGCGTTAGTAGGGTCACAATCAAGAGGACAAAGAAT                         ATTCNNNNNNNCATCTCAAAACCTGATGTCTTCAAGAGTCCAAATTCTGAG
genomic: TGAAACCTGTTACTGGCGTTAGTAGGGTCACAATCAAGAGGACAAAGAATgtgagcattg ... tatgcattagATTCTTTTTTTCATCTCAAAACCTGATGTCTTCAAGAGTCCAAATTCTGAG
EST: gi|151408608|gb|EV278416.1|EV278416
EST:     TGAAACCTGTTACTGGCGTTAGTAGGGTCACAATCAAGAGGACAAAGAAT                         ATTCNNNNNNNCATCTCAAAACCTGATGTCTTCAAGAGTCCAAATTCTGAG
genomic: TGAAACCTGTTACTGGCGTTAGTAGGGTCACAATCAAGAGGACAAAGAATgtgagcattg ... tatgcattagATTCTTTTTTTCATCTCAAAACCTGATGTCTTCAAGAGTCCAAATTCTGAG
EST: gi|7924488|gb|AW830514.1|AW830514
EST:     TGAAACCTGTTACTGGCGTTAGTAGGGTCACAATCAAGAGGACAAAGAAT                         ATTCNNNNNNNCATCTCAAAACCTGATGTCTTCAAGAGTCCAAATTCTGAG
genomic: TGAAACCTGTTACTGGCGTTAGTAGGGTCACAATCAAGAGGACAAAGAATgtgagcattg ... tatgcattagATTCTTTTTTTCATCTCAAAACCTGATGTCTTCAAGAGTCCAAATTCTGAG
EST: gi|151396271|gb|EV266148.1|EV266148
EST:     TGAAACCTGTTACTGGCGTTAGTAGGGTCACAATCAAGAGGACAAAGAAT                         ATTCNNNNNNNCATCTCAAAACCTGATGTCTTCAAGAGTCCAAATTCTGAG
genomic: TGAAACCTGTTACTGGCGTTAGTAGGGTCACAATCAAGAGGACAAAGAATgtgagcattg ... tatgcattagATTCTTTTTTTCATCTCAAAACCTGATGTCTTCAAGAGTCCAAATTCTGAG
EST: gi|6846537|gb|AW348827.1|AW348827
EST:     TAAAACCTGTTACTGGCGNNAGTAGGGTCACAATCAAGAGGACAAAGAAT                         ATTCNNNNNNNCATCTCAAAACCTGATGTCTTCAAGAGTCCAAATTCTGAG
genomic: TGAAACCTGTTACTGGCGTTAGTAGGGTCACAATCAAGAGGACAAAGAATgtgagcattg ... tatgcattagATTCTTTTTTTCATCTCAAAACCTGATGTCTTCAAGAGTCCAAATTCTGAG
EST: gi|298174693|gb|HO014724.1|HO014724
EST:     TGAAACCTGTTACTGGCGTTAGTAGGGTCACAATCAAGAGGACAAAGAAT                         ATTCNNNNNNNCATCTCAAAACCTGATGTCTTCAAGAGTCCAAATTCTGAG
genomic: TGAAACCTGTTACTGGCGTTAGTAGGGTCACAATCAAGAGGACAAAGAATgtgagcattg ... tatgcattagATTCTTTTTTTCATCTCAAAACCTGATGTCTTCAAGAGTCCAAATTCTGAG
EST: gi|298198631|gb|HO040170.1|HO040170
EST:     TGAAACCTGTTACTGGCGTTAGTAGGGTCACAATCAAGAGGACAAAGAAT                         ATTCNNNNNNNCATCTCAAAACCTGATGTCTTCAAGAGTCCAAATTCTGAG
genomic: TGAAACCTGTTACTGGCGTTAGTAGGGTCACAATCAAGAGGACAAAGAATgtgagcattg ... tatgcattagATTCTTTTTTTCATCTCAAAACCTGATGTCTTCAAGAGTCCAAATTCTGAG
EST: gi|17401291|gb|BM178073.1|BM178073
EST:     TGAAACCTGTTACTGGCGTTAGTAGGGTCACAATCAAGAGGACAAAGAAT                         ATTCNNNNNNNCATCTCAAAACCTGATGTCTTCAAGAGTCCAAATTCTGAG
genomic: TGAAACCTGTTACTGGCGTTAGTAGGGTCACAATCAAGAGGACAAAGAATgtgagcattg ... tatgcattagATTCTTTTTTTCATCTCAAAACCTGATGTCTTCAAGAGTCCAAATTCTGAG
EST: gi|298184967|gb|HO030180.1|HO030180
EST:     TGAAACCTGTTACTGGCGTTAGTAGGGTCACAATCAAGAGGACAAAGAAT                         ATTCNNNNNNNCATCTCAAAACCTGATGTCTTCAAGAGTCCAAATTCTGAG
genomic: TGAAACCTGTTACTGGCGTTAGTAGGGTCACAATCAAGAGGACAAAGAATgtgagcattg ... tatgcattagATTCTTTTTTTCATCTCAAAACCTGATGTCTTCAAGAGTCCAAATTCTGAG
EST: gi|33388223|gb|CA851430.1|CA851430
EST:     TGAAACCTGTTACTGGCGTTAGTAGGGTCACAATCAAGAGGACAAAGAAT                         ATTCNNNNNNNCATCTCAAAACCTGATGTCTTCAAGAGTCCAAATTCTGAG
genomic: TGAAACCTGTTACTGGCGTTAGTAGGGTCACAATCAAGAGGACAAAGAATgtgagcattg ... tatgcattagATTCTTTTTTTCATCTCAAAACCTGATGTCTTCAAGAGTCCAAATTCTGAG
EST: gi|26043669|gb|CA782121.1|CA782121
EST:     TGAAACCTGTTACTGGCGTTAGTAGGGTCACAATCAAGAGGACAAAGAAT                         ATTCNNNNNNNCATCTCAAAACCTGATGTCTTCAAGAGTCCAAATTCTGAG
genomic: TGAAACCTGTTACTGGCGTTAGTAGGGTCACAATCAAGAGGACAAAGAATgtgagcattg ... tatgcattagATTCTTTTTTTCATCTCAAAACCTGATGTCTTCAAGAGTCCAAATTCTGAG
EST: gi|192334785|gb|FK025276.1|FK025276
EST:     TGAAACCTGTTACTGGCGTTAGTAGGGTCACAATCAAGAGGACAAAGAAT                         ATTCNNNNNNNCATCTCAAAACCTGATGTCTTCAAGAGTCCAAATTCTGAG
genomic: TGAAACCTGTTACTGGCGTTAGTAGGGTCACAATCAAGAGGACAAAGAATgtgagcattg ... tatgcattagATTCTTTTTTTCATCTCAAAACCTGATGTCTTCAAGAGTCCAAATTCTGAG
EST: gi|192293893|gb|FG986102.1|FG986102
EST:     TGAAACCTGTTACTGGCGTTAGTAGGGTCACAATCAAGAGGACAAAGAAT                         ATTCNNNNNNNCATCTCAAAACCTGATGTCTTCAAGAGTCCAAATTCTGAG
genomic: TGAAACCTGTTACTGGCGTTAGTAGGGTCACAATCAAGAGGACAAAGAATgtgagcattg ... tatgcattagATTCTTTTTTTCATCTCAAAACCTGATGTCTTCAAGAGTCCAAATTCTGAG
EST: gi|15201639|gb|BI424979.1|BI424979
EST:     TGAAACCTGTTACTGGCGTTAGTAGGGTCACAATCAAGAGGACAAAGAAT                         ATTCNNNNNNNCATCTCAAAACCTGATGTCTTCAAGAGTCCAAATTCTGAG
genomic: TGAAACCTGTTACTGGCGTTAGTAGGGTCACAATCAAGAGGACAAAGAATgtgagcattg ... tatgcattagATTCTTTTTTTCATCTCAAAACCTGATGTCTTCAAGAGTCCAAATTCTGAG
EST: gi|298192560|gb|HO036642.1|HO036642
EST:     TGAAACCTGTTACTGGCGTTAGTAGGGTCACAATCAAGAGGACAAAGAAT                         ATTCNNNNNNNCATCTCAAAACCTGATGTCTTCAAGAGTCCAAATTCTGAG
genomic: TGAAACCTGTTACTGGCGTTAGTAGGGTCACAATCAAGAGGACAAAGAATgtgagcattg ... tatgcattagATTCTTTTTTTCATCTCAAAACCTGATGTCTTCAAGAGTCCAAATTCTGAG
EST: gi|33389448|gb|CA852655.1|CA852655
EST:     TGAAACCTGTTACTGGCGTTAGTAGGGTCACAATCAAGAGGACAAAGAAT                         ATTCNNNNNNNCATCTCAAAACCTGATGTCTTCAAGAGTCCNAATTCTGAG
genomic: TGAAACCTGTTACTGGCGTTAGTAGGGTCACAATCAAGAGGACAAAGAATgtgagcattg ... tatgcattagATTCTTTTTTTCATCTCAAAACCTGATGTCTTCAAGAGTCCAAATTCTGAG

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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCAGAGCAGAAGTGAGAAGAAGAGCCGAAAAGCAATGTTGAAGTTGGGACTGAAACCTGTTACTGGCGTTAGTAGGGTCACAATCAAGAGGACAAAGAATgtgagcattgttattgttctatctgtgatctatctgggaggcggatggattttaaccaatttgttttatgcattag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA