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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCCTTATAAACCCGATCCAGGTCCACTACTGCATATTTGTTCTCTTTGGGAAGTTCAACCAAATGAAGTTATAATGATTGGAGATAGCCTTAAAGATGATgtaagtaattcttttcttgataatgtaagtattcatgataaatgactactggtactcttttctttgtagagaaaactaagaagacatttcaaatacctgc...

Basic information

species Glycine max
transcript GLYMA10G33470.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G33470.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv05s0049g02320.t01 (Vitis vinifera), 5'ss of exon 3
TCCTTATAAACCCGATCCAGGTCCACTACTGCATATTTGTTCTCTTTGGGAAGTTCAACCAAATGAAGTTATAATGATTGGAGATAGCCTTAAAGATGATgtaagtaattcttttc------ttgataatgtaagtattcatgataaatgactactggtactcttttctttgtagagaaaactaagaagacatttcaaatacctgc
||| |||||||| || |||| ||||||||| ||||| ||||||  |||||||||||||||  ||||||| |||||| |||| |||||||||||||||||||| |||  ||||| |       ||  |||  ||| | ||   |||  ||  |  |  || ||  |||||   |    |   || | |    | ||  ||  |||  
TCCCTATAAACCAGACCCAGCTCCACTACTACATATCTGTTCTACTTGGGAAGTTCAACCCTATGAAGTAATAATGGTTGGTGATAGCCTTAAAGATGATgtgagttcttcttcttgaatcatttttaaaataa-tgtttccgatgcat--cagcaagtgctggtttctac-tgttcagttcttatacctgaattagaaaccct--
















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|18734109|gb|BM527990.1|BM527990
EST:     AAGTTCAACCAAATGAAGTTATAATGATTGGAGATAGCCTTAAAGATGAT                         GTGCCTTGTGGAAGGCAAGCAGGAGCCTTTACATGCTTGCTTGATCAAACA
genomic: AAGTTCAACCAAATGAAGTTATAATGATTGGAGATAGCCTTAAAGATGATgtaagtaatt ... cttttcacagGTGCCTTGTGGAAGGCAAGCAGGAGCCTTTACATGCTTGCTTGATCAAACA
EST: gi|10237909|gb|BE806797.1|BE806797
EST:     AAGTTCAACCAAATGAAGTTATAATGATTGGAGATAGCCTTAAAGATGAT                         GTGCCTTGTGGAAGGCAAGCAAGAGCCTTTACATGCTTGCTTGATCAAACA
genomic: AAGTTCAACCAAATGAAGTTATAATGATTGGAGATAGCCTTAAAGATGATgtaagtaatt ... cttttcacagGTGCCTTGTGGAAGGCAAGCAGGAGCCTTTACATGCTTGCTTGATCAAACA
EST: gi|209708035|gb|BW662164.1|BW662164
EST:     AAGTTCAACCAAATGAAGTTATAATGATTGGAGATAGCCTTAAAGATGAT                         GTGCCTTGTGGAAGGCAAGCAGGAGCCTTTACATGCTTGCTTGATCAAACA
genomic: AAGTTCAACCAAATGAAGTTATAATGATTGGAGATAGCCTTAAAGATGATgtaagtaatt ... cttttcacagGTGCCTTGTGGAAGGCAAGCAGGAGCCTTTACATGCTTGCTTGATCAAACA
EST: gi|22928300|gb|BU545439.1|BU545439
EST:     AAGTTCAACCAAATGAAGTTATAATGATTGGAGATAGCCTTAAAGATGAT                         GTGCCTTGTGGAAGGCAAGCAGGAGCCTTTACATGCTTGCTTGATCAAACA
genomic: AAGTTCAACCAAATGAAGTTATAATGATTGGAGATAGCCTTAAAGATGATgtaagtaatt ... cttttcacagGTGCCTTGTGGAAGGCAAGCAGGAGCCTTTACATGCTTGCTTGATCAAACA

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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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TCCTTATAAACCCGATCCAGGTCCACTACTGCATATTTGTTCTCTTTGGGAAGTTCAACCAAATGAAGTTATAATGATTGGAGATAGCCTTAAAGATGATgtaagtaattcttttcttgataatgtaagtattcatgataaatgactactggtactcttttctttgtagagaaaactaagaagacatttcaaatacctgc

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG