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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTCGAGCAAAACATGACATAACAAATACCGTTGTTGCTGGATGTGCAACTGGAGGTGCAATATCAGCAAAAGgtaactctttcttctttcattttctgtcatttttatcatgtttttctttctcttatatgttacaaatgacaggcatacatggcatttcaaggcatgtata...

Basic information

species Glycine max
transcript GLYMA09G35780.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA09G35780.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv06s0004g07140.t01 (Vitis vinifera), 5'ss of exon 3
GCTCGAGCAAAACATGACATAACAAATACCGTTGTTGCTGGATGTGCAACTGGAGGTGCAATATCAGCAAAAGgtaactctttcttcttt-cattttctgtcatttttatcatgtttttctttctcttatatgttacaaatgacaggcatacatggcatttcaa-ggcatgtata
|| || ||||||||||| | ||||||||| |||||||| || ||||  ||||| ||||||||||||||||||||||||| ||| || ||| |||  ||||     ||| |   |        | | | |     |  |||       | |  |   | | |    |   || || 
GCGCGTGCAAAACATGATACAACAAATACAGTTGTTGCGGGGTGTGTTACTGGGGGTGCAATATCAGCAAAAGgtaactttttttttttttcatcatctggttcattt-ttgggccaagaagtttatgagggcatggaaactgtgttcttttaaaacctattgctgatctgcat-
















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|193427139|gb|FK392661.1|FK392661
EST:     ATCAGCAAAAG                         GTGGCCCAAAAGCAGCGTGTGCTGGTTGTGCTGGCTTTGCGGCATTCTCAG
genomic: ATCAGCAAAAGgtaactcttt ... atggttctagGTGGCCCAAAAGCAGCGTGTGCTGGTTGTGCTGGCTTTGCGGCATTCTCAG
EST: gi|298189377|gb|HO037780.1|HO037780
EST:     AAATACCGTTGTTGCTGGATGTGCAACTGGAGGTGCAATATCAGCAAAAG                         GTGGCCCAAAAGCAGCGTGTGCTGGTTGTGCTGGCTT
genomic: AAATACCGTTGTTGCTGGATGTGCAACTGGAGGTGCAATATCAGCAAAAGgtaactcttt ... atggttctagGTGGCCCAAAAGCAGCGTGTGCTGGTTGTGCTGGCTT
EST: gi|26047885|gb|CA784534.1|CA784534
EST:     AAATACCGTTGTTGCTGGATGTGCAACTGGAGGTGCAATATCAGCAAAAG                         GTGGCCCAAAAGCAGCGTGTGCTGGTTGTGCTGGCTTTGCGGCATTCTCAG
genomic: AAATACCGTTGTTGCTGGATGTGCAACTGGAGGTGCAATATCAGCAAAAGgtaactcttt ... atggttctagGTGGCCCAAAAGCAGCGTGTGCTGGTTGTGCTGGCTTTGCGGCATTCTCAG
EST: gi|207795110|gb|GD763531.1|GD763531
EST:     AAATACCGTTGTTGCTGGATGTGCAACTGGAGGTGCAATATCAGCAAAAG                         GTGGCCCAAAAGCAG
genomic: AAATACCGTTGTTGCTGGATGTGCAACTGGAGGTGCAATATCAGCAAAAGgtaactcttt ... atggttctagGTGGCCCAAAAGCAG
EST: gi|31307580|gb|CD392783.1|CD392783
EST:     AAATACCGTTGTTGCTGGATGTGCAACTGGAGGTGCAATATCAGCAAAAG                         GTGGCCCAAAAGCAGCGTGTGCTGGTTGTGCTGGCTTTGCGGCATTCTCAG
genomic: AAATACCGTTGTTGCTGGATGTGCAACTGGAGGTGCAATATCAGCAAAAGgtaactcttt ... atggttctagGTGGCCCAAAAGCAGCGTGTGCTGGTTGTGCTGGCTTTGCGGCATTCTCAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCTCGAGCAAAACATGACATAACAAATACCGTTGTTGCTGGATGTGCAACTGGAGGTGCAATATCAGCAAAAGgtaactctttcttctttcattttctgtcatttttatcatgtttttctttctcttatatgttacaaatgacaggcatacatggcatttcaaggcatgtata

- - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG