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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaatttcaaatgatgaacctgacacgaatcacagttttttttttatgttattgactgctatgatctttggagttgttgctaaatattatttggagtcatacctaagtcttgtttttttttttctcgttcagTATGGAGTAGAATTTGTAGCTGAGCATCTTCTTCCATTGCTTATGCCCCTGCTGACTGCTCCACAATTGAATGTTCAACAGTTTGCCAAATATATGCTCT

Basic information

species Glycine max
transcript GLYMA09G00470.1
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA09G00470.1 (Glycine max), 3'ss of exon 12
lower sequence: AT1G22870.1 (Arabidopsis thaliana), 3'ss of exon 12
gtaaatttcaaatgatgaacctgacacgaatcacagttttttttttatgttattgactgctatgatctttggagttgttgctaaatattatttggagtcatacctaagtcttgtttttttttttctcgttcagTATGGAGTAGAATTTGTAGCTGAGCATCTTCTTCCATTGCTTATGCCCCTGCTGACTGCTCCACAATTGAATGTTCAACAGTTTGCCAAATATATGCTCT
                              | | |||  |||  || | | | | | |  || ||| |||| |  | ||  |    | |||||    |  | |||   |||   |  ||| |||||     |||||||||| |||||     | || ||  | |||||  || |||| || || || ||||| | |||||||||||| |||||||||||||||||||| || |
-------------------------gtaggtaaaagtagtttactt-tctcaataa-tatta-gatgtttgaaaatcttaattttcaatatttttcatagtgcct---tctccatcatttctttct-----agTATGGAGTTGAATTCACTTCAGAACACGTACTTCCCCTGATTATACCACTTCTCACTGCCCAACAATTGAATGTCCAACAGTTTGCCAAATATATTCTAT

upper sequence: GLYMA09G00470.1 (Glycine max), 3'ss of exon 12
lower sequence: Vv18s0089g00030.t01 (Vitis vinifera), 3'ss of exon 12
gta-aatttcaaatgatgaacctgacacgaatcacagttttttttttatgttattgactgctatgatctttggagttgttgctaaatattatttggagtcatacctaagtcttgtttttttttttctcgttcagTATGGAGTAGAATTTGTAGCTGAGCATCTTCTTCCATTGCTTATGCCCCTGCTGACTGCTCCACAATTGAATGTTCAACAGTTTGCCAAATATATGCTCT
||| | ||||     ||| | |||       ||| || ||||  ||| | ||||||  |  ||||   |   || |    | |   |   |||     ||||   |   |  ||| |   | | | |||||||||||||  |||||||||  ||||||||| | |||||| | || |  || || || | ||||| |||||||||||||||||||||||| || || |||||||
gtacagtttccttcaatggagctggtgt---tca-agcttttagtttgtattattgg-tagtatg--ttaaagaatctcggttgtgtggaattacagctcattgttc--ttctgtctcaatgtgtgtcgttcagTATGGTATAGAATTTGCTGCTGAGCATGTCCTTCCACTACTCACACCTCTTCTCATTGCTCAACAATTGAATGTTCAACAGTTTGCAAAGTACATGCTCT
















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|26057585|gb|CA800499.1|CA800499
EST:     CTCCAACCCTTATGTGTACCCTAGGGGTTGCAAATTCTATTTTCAAGCAG                         TATGGAGTAGAATTTGTAGCTGAGCATCTTCTTCCATTGCTTATGCCCCTG
genomic: CTCCAACCCTTATGTGTACCCTAGGGGTTGCAAATTCTATTTTCAAGCAGgtaaatttca ... tctcgttcagTATGGAGTAGAATTTGTAGCTGAGCATCTTCTTCCATTGCTTATGCCCCTG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgctaaatattatttggagtcatacctaagtcttgtttttttttttctcgttcagTATGGAGTAGAATTTGTAGCTGAGCATCTTCTTCCATTGCTTATGCCCCTGCTGACTGCTCCACAATTGAATGTTCAACAGTTTGCCAAATATATGCTCT
 tgctaaa  putative branch site (score: 2)
                              tcttgttttttttttt  putative PPT
                              tcttgttttttttttt  TA-rich tract