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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttgaatgtctccatttttttaaaaattatttacttttctcacctgggataatataaaattatttgacccatgatattatgacactgcagTTGGAAGCTTGCATTCATCCATTTTTTGATGAATTGAGGGACCCAAACACCCGCCTTCCTAATGGTCGACCACTTCCTCCACTGTTTAATTTTAAACCTC

Basic information

species Glycine max
transcript GLYMA16G00400.1
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G00400.1 (Glycine max), 3'ss of exon 10
lower sequence: AT1G09840.2 (Arabidopsis thaliana), 3'ss of exon 12
gtaagttgaatgtctccatttttttaaaaattatttacttttctcacctgggataatataaaattatttgacccatgatatta-tgacactgcagTTGGAAGCTTGCATTCATCCATTTTTTGATGAATTGAGGGACCCAAACACCCGCCTTCCTAATGGTCGACCACTTCCTCCACTGTTTAATTTTAAACCTC
||||||| | |   ||| ||   |  |    ||||  | | |          || || |||| | |||  |  ||   |  |  ||  | || ||||||||||||| || ||||| || ||||||||  | |||||||||||||| || ||||| ||||| ||||||||||||||||| || || |||||||| |
gtaagttaattcgttccgttccctcca----tattagcatct---------aatgatctaaattcattaaaaacactcttctggtgttattgtagTTGGAAGCTTGTATCCATCCGTTATTTGATGAGCTAAGGGACCCAAACACTCGTCTTCCCAATGGCCGACCACTTCCTCCACTTTTCAACTTTAAACCGC

upper sequence: GLYMA16G00400.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv12s0035g01060.t01 (Vitis vinifera), 3'ss of exon 10
gtaagttgaatgtctc------catttttttaaaaattatttacttttctcacctgggataatataaaattatt--tgacccatgatattatgacactgcagTTGGAAGCTTGCATTCATCCATTTTTTGATGAATTGAGGGACCCAAACACCCGCCTTCCTAATGGTCGACCACTTCCTCCACTGTTTAATTTTAAACCTC
||||||| |||   |       ||||  ||   | |   ||  ||      |  ||   ||||   |||  ||   ||| |  |  | |  ||| | ||||||||||||||||||| || || || |||||||| ||||||||||| | ||| || ||||||||||| || || |||||||| || |||||||| |||||||
gtaagtttaatacttttttaagcattccttctcacaaatttgcctgagtggaggtgatctaatggtaaagcatgaatgatcatttctctattgatattgcagTTGGAAGCTTGCATCCACCCTTTCTTTGATGAGTTGAGGGACCCTAGCACTCGTCTTCCTAATGGCCGTCCTCTTCCTCCCCTCTTTAATTTCAAACCTC

upper sequence: GLYMA16G00400.1 (Glycine max), 3'ss of exon 10
lower sequence: PP1S74_168V6.1 (Physcomitrella patens), 3'ss of exon 9
------gtaagttgaatgtctccatttttttaaaaattatttacttttctcacctgggataatataaaattatttgacccat-gatattatgacactgcagTTGGAAGCTTGCATTCATCCATTTTTTGATGAATTGAGGGACCCAAACACCCGCCTTCCTAATGGTCGACCACTTCCTCCACTGTTTAATTTTAAACCTC
       |  |     |||     ||||  |   |  | |     |   | |  |   ||  ||     | |  |||    | | |   |      ||||||||||||||||| | |||||||| ||||||||| |  | || || |||  |||  | || | ||| || || || || || |||||||||||||| | ||
gtgagaattggcgcgctgtgatggttttggttgtagatctaggaatgaattat-taacatgttaatgcgtcagctgattggttgttgcgaacggtgtgcagTTGGAAGCTTGCGTGCATCCATTCTTTGATGAACTTCGAGATCCCAACTGCCGTTTGCCGAGTGGGCGGCCTCTGCCCCCGCTGTTTAATTTTAAGCGTC

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|21256665|gb|BQ453553.1|BQ453553
EST:     ACCTTGTCTGTAGGTTCTTTCAGTACTCTCCCAATTTGAGATGCACTGCA                         TTGGAAGCTTGCATTCATCCATTTTTTGATGAATTGAGGGACCCAAACACC
genomic: ACCTTGTCTGTAGGTTCTTTCAGTACTCTCCCAATTTGAGATGCACTGCAgtaagttgaa ... gacactgcagTTGGAAGCTTGCATTCATCCATTTTTTGATGAATTGAGGGACCCAAACACC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttctcacctgggataatataaaattatttgacccatgatattatgacactgcagTTGGAAGCTTGCATTCATCCATTTTTTGATGAATTGAGGGACCCAAACACCCGCCTTCCTAATGGTCGACCACTTCCTCCACTGTTTAATTTTAAACCTC
             ataatataaaattatt  TA-rich tract