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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGGAATGATCCAGCACAATGCTTGGAGACCCCAGAGAGGATTGCCTGAAAGATCCGTTTCTGTTCTTCGTGCTTGGCTCTTCGAACACTTCCTCCACCCgtaagcacacttacatttataaaagttctctctttttattttattctcttgtaagtaattatggaaaaagtttacaacattttaaatgtttactgttaatttaattcaaagataatacatgttgtgctgaaataactttgtttggatttcag

Basic information

species Glycine max
transcript GLYMA03G36070.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G36070.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os11g06020.1 (Oryza sativa), 5'ss of exon 3
TGGGAATGATCCAGCACAATGCTTGGAGACCCCAGAGAGGATTGCCTGAAAGATCCGTTTCTGTTCTTCGTGCTTGGCTCTTCGAACACTTCCTCCACCCgtaagcacacttacatttataaaagttctc-tctttttattttattctcttgtaagtaattatggaaaaagtttacaacattttaaatgtttactgttaatttaattcaaagataatacatgttgtgctgaaataactttgtttggatttcag
|||| ||||| |||  ||  || ||| | |||||| | ||  | || ||  | ||||| ||  | || || |||||||||||||||||||||||||||||||| |  ||  ||  | |  |  | |  || ||  | | ||       | |     | ||  |  ||   |||| ||     |   ||    |   ||  |                                                    
TGGGCATGATGCAGAGCAGCGCGTGGCGCCCCCAGCGCGGCCTCCCCGAGCGCTCCGTCTCCATCCTCCGGGCTTGGCTCTTCGAACACTTCCTCCACCCgtatgtccatatatttatccatcattcttcatccatctcttccggctccctccgtttcatattataagtcgttttcattgcatctcat--ccatcattcttc---------------------------------------------------

upper sequence: GLYMA03G36070.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os12g06340.2 (Oryza sativa), 5'ss of exon 3
TGGGAATGATCCAGCACAATGCTTGGAGACCCCAGAGAGGATTGCCTGAAAGATCCGTTTCTGTTCTTCGTGCTTGGCTCTTCGAACACTTCCTCCACCCgtaagcacacttacatttataaaagttctctctttttattttattctcttgtaagtaattatggaaaaagtttacaacattttaaatgtttactgttaat-ttaattcaaagataatacatgttgtgctgaaataactttgtttggatttcag
 ||       |     |   |  ||| | || ||| | ||  | || ||  |  |||| || || || || |||||||||||||| || |||||||||||||||| |           || ||| ||     |||  | ||||   |  ||||  | ||| | |      |||     |||||   | ||||     |   ||| ||   |                                          
CGGTGGGCGCCGCCGGCGGCGGGTGGCGGCCGCAGCGTGGCCTCCCCGAGCGCGCCGTCTCCGTCCTCCGCGCTTGGCTCTTCGAGCATTTCCTCCACCCgtaagta-----------atcaaattttgaattttaaaatttaaatt--tgtagttgatttttggggttttttct--tattttccttttttaaaacaagccttagtttttaagcc--------------------------------------

upper sequence: GLYMA03G36070.1 (Glycine max), 5'ss of exon 4
lower sequence: AT2G35940.2 (Arabidopsis thaliana), 5'ss of exon 3
-TGGGAATGATCCAGCACAATGCTTGGAGACCCCAGAGAGGATTGCCTGAAAGATCCGTTTCTGTTCTTCGTGCTTGGCTCTTCGAACACTTCCTCCACCCgtaagcacacttacatttataaaagttctctctttttattttattctcttgtaagtaattatggaaaaagtttacaacattttaaatgtttactgttaatttaattcaaagataatacatgttgtgctgaaataactttgtttggatttcag
 |    ||  | |   | |||||||||||||| ||  | ||  | || ||| || |||| || ||||| ||||||||||||||||||||||| || || ||||||| | ||  || | || | |  | | ||  ||||   | | |       ||  | | |      |||||  |    |||||| |                                                                 
TTCAACATCCTTCCA-ATAATGCTTGGAGACCTCAACGTGGTCTCCCAGAACGAGCCGTCTCAGTTCTCCGTGCTTGGCTCTTCGAACACTTTCTTCATCCgtaagta-acccac-tatacacacatgcactactttt-catcactggaacacaa--actcagtctctaagttgtctttcttttaattag---------------------------------------------------------------

upper sequence: GLYMA03G36070.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv08s0105g00230.t01 (Vitis vinifera), 5'ss of exon 10
TGGGAATGATCCAGCACAATGCTTGGAGACCCCAGAGAGGATTGCCTGAAAGATCCGTTTCTGTTCTTCGTGCTTGGCTCTTCGAACACTTCCTCCACCCgtaagcacacttacatttataaaagttctctctttttattttattctcttgtaagt--aattatggaaaaagttta-caacattttaaatgtttactgttaatttaattcaaagataatacatgttgtgctgaaataactttgtttggatttcag
||||||||||||| || |||| ||||||||||||||||||||||||||||||||| |||||||||||||| ||||||||||| ||||||||||||||||||||||||| ||| || || ||    || | | |||    || |    |  |||| |  | ||   || | | |||       ||| |                                                                    
TGGGAATGATCCAACAGAATGTTTGGAGACCCCAGAGAGGATTGCCTGAAAGATCTGTTTCTGTTCTTCGCGCTTGGCTCTTTGAACACTTCCTCCACCCgtaagcac-ctttcaatttta----ttttatttttccccttcaaagcccagtaattccagttgctgagatattttggttgtgtttcag-------------------------------------------------------------------

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|19452722|gb|BM954132.1|BM954132
EST:     AGATCCGTTTCTGTTCTTCGTGCTTGGCTCTTCGAACACTTCCTCCACCC                         TTATCCTAAGGATTCGGACAAGCACATGCTTGCAAAACAAACAGGGTTAAC
genomic: AGATCCGTTTCTGTTCTTCGTGCTTGGCTCTTCGAACACTTCCTCCACCCgtaagcacac ... tggatttcagTTATCCTAAGGATTCGGACAAGCACATGCTTGCAAAACAAACAGGGTTAAC
EST: gi|23735099|gb|BU765815.1|BU765815
EST:     AGATCCGTTTCTGTTCTTCGTGCTTGGCTCTTCGAACACTTCCTCCACCC                         TTATCCTAAGGATTCGGACAAGCACATGCTTGCAAAACAAACAGGGTTAAC
genomic: AGATCCGTTTCTGTTCTTCGTGCTTGGCTCTTCGAACACTTCCTCCACCCgtaagcacac ... tggatttcagTTATCCTAAGGATTCGGACAAGCACATGCTTGCAAAACAAACAGGGTTAAC