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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaccatgttttttaggttatttttacttgtttaggctgttaagcatagggtactgactgaattttttgcttttagGGGTTGGTTAGCTCAGCTCAAATGGTAAAATTTCTTGCAATCAATGCCAGGCCAACCACCAGTAGGTTTATTTCCCGAACTCTGCCTCAAGCACTATCAA

Basic information

species Glycine max
transcript GLYMA08G19780.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G19780.1 (Glycine max), 3'ss of exon 3
lower sequence: AT5G24690.1 (Arabidopsis thaliana), 3'ss of exon 3
gtaccatgttttttaggttatttttacttgtttaggctgttaagcatagggtactgac-----tgaattt-------tttgcttttagGGGTTGGTTAGCTCAGCTCAAATGGTAAAATTTCTTGCAATCAATGCCAGGCCAACCACCAGTAGGTTTATTTCCCGAACTCTGCCTCAAGCACTATCAA
||   |  |  |||| | |  || |  |  | |    || | | | |  | | |||||     |||||||        |||     |||| ||||| ||||||||||||||||| ||||| ||||| || |||||| | || || || | |||  | || |||||  | || ||||| | | |||| |
gtgagacatcgtttaagct--ttctgttattatgaaatggtgatcttgcgatgctgacatacttgaatttacggaaacttgtacgcagGGTTTGGTCAGCTCAGCTCAAATGGTGAAATTCCTTGCCATAAATGCCCGTCCTACAACGACTAGAATGATCTCCCGTGCCCTTCCTCAGGGATTATCGA

upper sequence: GLYMA08G19780.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv12s0034g01370.t01 (Vitis vinifera), 3'ss of exon 3
gtaccatgttttttaggttatttttacttgtttaggctgttaagcatagggtactgactgaattttttgcttttagGGGTTGGTTAGCTCAGCTCAAATGGTAAAATTTCTTGCAATCAATGCCAGGCCAACCACCAGTAGGTTTATTTCCCGAACTCTGCCTCAAGCACTATCAA
||      ||||     ||| | ||| | ||  |||    |||   |||  | || |||||| | || | ||  |||| ||||| ||||| ||||||||||||||||| || |||||||||||||| ||||||||   ||||||||| || ||||| || || |||| | | || |
gtgattatttttcctacttaatctta-tggtgaaggactctaaagctaga-tcctaactgaaatatt-gtttacagGGTTTGGTCAGCTCGGCTCAAATGGTAAAATTCCTAGCAATCAATGCCAGACCAACCACTGCTAGGTTTATATCTCGAACACTTCCCCAAGGAATGTCTA
















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|6482945|gb|AW202211.1|AW202211
EST:     AAAAGACTATGATGGATTTGCCTGCTGGGCTTCGGCAAGCTTATGAAATG                         GGGTTGGTTAGCTCAGCTCAAATGGTAAAATTTCTTGCAATCAATGCCAGG
genomic: AAAAGACTATGATGGATTTGCCTGCTGGGCTTCGGCAAGCTTATGAAATGgtaccatgtt ... ttgcttttagGGGTTGGTTAGCTCAGCTCAAATGGTAAAATTTCTTGCAATCAATGCCAGG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttacttgtttaggctgttaagcatagggtactgactgaattttttgcttttagGGGTTGGTTAGCTCAGCTCAAATGGTAAAATTTCTTGCAATCAATGCCAGGCCAACCACCAGTAGGTTTATTTCCCGAACTCTGCCTCAAGCACTATCAA
                              tactgac  putative branch site (score: 1)
                                         ttttttgctttt  putative PPT
                                       aattttttgctttta  TA-rich tract