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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaatttcaaatgatgagcctgacataaatcacagttttttatattattgactgctatgatcaacgatatttggagttgttgctaaatagtatttggaatcatacttgtctttttttttctcctcttcagTATGGAGTAGAATTTGTAGCTGAGCATGTTCTTCCATTGCTTATACCCCTGCTGACTGCTCAACAATTGAATGTTCAACAGTTTGCCAAATATATGCTCT

Basic information

species Glycine max
transcript GLYMA12G37070.1
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA12G37070.1 (Glycine max), 3'ss of exon 12
lower sequence: AT1G71410.1 (Arabidopsis thaliana), 3'ss of exon 12
gtaaatttcaaatgatgagcctgacataaatcacagttttttatattattgactgctatgatcaacgatatttggagttgttgctaaatagtatttggaatcatacttgtctttttttttctcctcttcagTATGGAGTAGAATTTGTAGCTGAGCATGTTCTTCCATTGCTTATACCCCTGCTGACTGCTCAACAATTGAATGTTCAACAGTTTGCCAAATATATGCTCT
|||   ||||  | |         | |||         ||| |   | |||||| |          ||||| |||  | ||||      | ||| || |            ||||  |   |  | |  |||||||||| |||||   ||| || ||||| ||| |  || | || || || || ||||| |||||| |||| || ||||||||||||||||||||||| |
gtaggattcaggtcaaattttctccttaatgtttgaaatttgaatgtcttgacttcccctcgttttgatatgtggtatcgttgtatctcattatctgca-----------tttttcatcattgttttctagTATGGAGTTGAATTCACAGCAGAACATGTGCTTACCCTGATGATGCCGCTTCTCACTGCCCAACAACTGAACGTCCAACAGTTTGCCAAATATATGCTAT

upper sequence: GLYMA12G37070.1 (Glycine max), 3'ss of exon 12
lower sequence: AT1G22870.1 (Arabidopsis thaliana), 3'ss of exon 12
gtaaatttcaaatgatgagcctgacataaatcacagttttttatattattgactgctatgatcaacgatatttggagttgttgctaaatagtatttggaatcatacttgtctttttttttctcctcttcagTATGGAGTAGAATTTGTAGCTGAGCATGTTCTTCCATTGCTTATACCCCTGCTGACTGCTCAACAATTGAATGTTCAACAGTTTGCCAAATATATGCTCT
                          ||  | | |||  ||||  || |  |    ||  || |  ||| |||| |  | ||  |    | |||||    ||||| |    | |   |   | || |  |||||||||| |||||     | || || || |||||  || ||||||| || || ||||| |||||||||||||| |||||||||||||||||||| || |
-------------------------gtaggtaaaagtagtttactttctcaa----taatatta--gatgtttgaaaatcttaattttcaatatttt---tcatagtgccttctccatcatttctttctagTATGGAGTTGAATTCACTTCAGAACACGTACTTCCCCTGATTATACCACTTCTCACTGCCCAACAATTGAATGTCCAACAGTTTGCCAAATATATTCTAT

upper sequence: GLYMA12G37070.1 (Glycine max), 3'ss of exon 12
lower sequence: Vv18s0089g00030.t01 (Vitis vinifera), 3'ss of exon 12
gta-aatttcaaatgatgagcctgacataaatcacagttttttatattattgactgctatgatcaacgatatttggagttgttgctaaatagtatttggaatcatacttgtctttttttttctcctcttcagTATGGAGTAGAATTTGTAGCTGAGCATGTTCTTCCATTGCTTATACCCCTGCTGACTGCTCAACAATTGAATGTTCAACAGTTTGCCAAATATATGCTCT
||| | ||||     |||   |||   |  |      |  ||| ||||||||  |  |||| | ||  || |     ||||| |   |||   |  |   ||  | ||| | | |   | | |    ||||||||||  |||||||||  ||||||||||| |||||| | || | ||| || || | |||||||||||||||||||||||||||||| || || |||||||
gtacagtttccttcaatggagctggtgttcaagcttttagtttgtattattgg-tagtatgttaaagaatctc---ggttgt-gtggaattacagct--cattgttcttctgtctcaatgtgtgtcgttcagTATGGTATAGAATTTGCTGCTGAGCATGTCCTTCCACTACTCACACCTCTTCTCATTGCTCAACAATTGAATGTTCAACAGTTTGCAAAGTACATGCTCT

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|7796790|gb|AW782184.1|AW782184
EST:     CTCCAACCCTTATGTGTACCCTAGGGGTTGCAAATTCTATTTTCAAGCAG                         TATGGAGTAGAATTTGTAGCTGAGCATGTTCTTCCATTGCTTATACCCCTG
genomic: CTCCAACCCTTATGTGTACCCTAGGGGTTGCAAATTCTATTTTCAAGCAGgtaaatttca ... tcctcttcagTATGGAGTAGAATTTGTAGCTGAGCATGTTCTTCCATTGCTTATACCCCTG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttgttgctaaatagtatttggaatcatacttgtctttttttttctcctcttcagTATGGAGTAGAATTTGTAGCTGAGCATGTTCTTCCATTGCTTATACCCCTGCTGACTGCTCAACAATTGAATGTTCAACAGTTTGCCAAATATATGCTCT
     tgctaaa  putative branch site (score: 2)
                        tcatacttgtcttttt  putative PPT
                              ttgtcttttttttt  TA-rich tract