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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagcctatcgtacatgatgtaaagtaatcatgtccatcactttaatgtttacccttcattattatctttcttttctgtatggcttcttacattcatttgtaatttttgcaagtttagTTTGCGGGTTCGATCGGAGCAGTCACTTGTGAGGTGGGCTACACCCCAACTCCATGATATAGATGCCTTGGCCAAAATGGTTGATCCTACTTTGAACGGC

Basic information

species Glycine max
transcript GLYMA15G11820.1
intron # 14
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA15G11820.1 (Glycine max), 3'ss of exon 14
lower sequence: AT4G22130.2 (Arabidopsis thaliana), 3'ss of exon 9
gtgagcctatcgtacatgatgtaaagtaatcatgtccatcactttaatgtttacccttcattattatctttcttttctgtatggcttcttacattcatttgtaatttttgcaagtttagTTTGCGGGTTCGATCGGAGCAGTCACTTGTGAGGTGGGCTACACCCCAACTCCATGATATAGATGCCTTGGCCAAAATGGTTGATCCTACTTTGAACGGC
    |  | |  | ||| || |  ||||  ||        |  || |    || ||    | |  |     ||  | ||  |   | ||||  |  | | ||  ||| || | || ||| | | ||    || | ||||| ||||| ||||| ||||| ||||| || || || ||||||||||| ||| | ||||||||||||||| || | || |||
----gtttctttt-cat-atttttagtagcca--------atgttgagcaatagccaatgtgagcaaaagcctgatttgagt--ttccttatgtaaaat-gtgctttgtgtatgtgtagCTCGAGGACGAGAGCAGAGCAATCACTAGTGAGATGGGCAACACCGCAGCTTCACGATATAGATGCTTTGTCTAAAATGGTTGATCCTTCTCTTAATGGC

upper sequence: GLYMA15G11820.1 (Glycine max), 3'ss of exon 14
lower sequence: Vv10s0116g00100.t01 (Vitis vinifera), 3'ss of exon 14
gt-gagcctatcgtacatgatgtaaagtaatcatgtccatcactttaatgtttaccctt-cattatt--atctttcttttctgtatggcttcttacattcatttgtaatttttgcaagtttagTTTGCGGGTTCGATCGGAGCAGTCACTTGTGAGGTGGGCTACACCCCAACTCCATGATATAGATGCCTTGGCCAAAATGGTTGATCCTACTTTGAACGGC
|| || | | |  |||||  ||   |  |  ||| |   |    || |  | |    |  |||| ||  |||| |      ||  | | ||||    |||   | |  |||||     |||||||   | ||  |||| || |||||||||||||| |||||||| |||||||| ||||||||||||||| |||| ||||||||||||||| |  | || |||
gtagaacatgtgctacat--tgctgaacacccatttttgtgttcttgaaatattttatagcattctttaatctcttgacattggtttgtttctatggttctcatcttcttttttgtgttttagTTCAAGAGTGAGATCAGAACAGTCACTTGTGAGATGGGCTACTCCCCAACTTCATGATATAGATGCCCTGGCAAAAATGGTTGATCCTTCCCTAAATGGC

upper sequence: GLYMA15G11820.1 (Glycine max), 3'ss of exon 14
lower sequence: EFJ34030 (Selaginella moellendorffii), 3'ss of exon 4
gtgagcctatcgtacatgatgtaaagtaatcatgtccatcactttaatgtttacccttcattattatctttcttttctgtatggcttcttacattcatttgtaatttttgcaagtttagTTTGCGGGTTCGATCGGAGCAGTCACTTGTGAGGTGGGCTACACCCCAACTCCATGATATAGATGCCTTGGCCAAAATGGTTGATCCTACTTTGAACGGC
                                                           |   || || |  |||||    |    | || ||||   |    |  | | | | || ||||   | |  || ||||||||||| || ||||| ||||| ||||| |||||||| ||||| |||||  || | |||||||| || ||| | ||||| |||
---------------------------------------------------------gtaaggtt-tcctagttttcaaggttatatgttccattagctaaagaggtgttcta-ttcagTTCAAGAGCGCGCTCGGAGCAGTCGCTGGTGAGATGGGCCACACCTCAACTCCACGATATTGATGCGCTGTCTAAAATGGTGGACCCTGCGTTGAAAGGC

upper sequence: GLYMA15G11820.1 (Glycine max), 3'ss of exon 14
lower sequence: EFJ37538 (Selaginella moellendorffii), 3'ss of exon 13
gtgagcctatcgtacatgatgtaaagtaatcatgtccatcactttaatgtttacccttcattattatctttcttttctgtatggcttcttacattcatttgtaatttttgcaagtttagTTTGCGGGTTCGATCGGAGCAGTCACTTGTGAGGTGGGCTACACCCCAACTCCATGATATAGATGCCTTGGCCAAAATGGTTGATCCTACTTTGAACGGC
                                                           |   || || |  |||||    |    | || ||||   |    |  | | | | || ||||   | |  || ||||||||||| || ||||| ||||| ||||| |||||||| ||||| |||||  || | |||||||| || ||| | ||||| |||
---------------------------------------------------------gtaaggtt-tcctagttttcaaggttatatgttccattagctaaagaggtgttcta-ttcagTTCAAGAGCACGCTCGGAGCAGTCGCTGGTGAGATGGGCCACACCTCAACTCCACGATATTGATGCGCTGTCTAAAATGGTGGACCCTGCGTTGAAAGGC

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|193401170|gb|FK370141.1|FK370141
EST:     TTTGGGGTGGTTATGCTGGAACTATTGACTGGTCGGAAGCCACTTGACAG                         TTTGCGGGTTCGATCGGAGCAGTCACTTGTGAGGTGGGCTACACCCCAACT
genomic: TTTGGGGTGGTTATGCTGGAACTATTGACTGGTCGGAAGCCACTTGACAGgtgagcctat ... gcaagtttagTTTGCGGGTTCGATCGGAGCAGTCACTTGTGAGGTGGGCTACACCCCAACT
EST: gi|193365287|gb|FK329736.1|FK329736
EST:     TTTGGGGTGGTTATGCTGGAACTATTGACTGGTCGGAAGCCACTTGACAG                         TTTGCGGGTTCGATCGGAGCAGTCACTTGTGAGGTGGGCTACACCCCAACT
genomic: TTTGGGGTGGTTATGCTGGAACTATTGACTGGTCGGAAGCCACTTGACAGgtgagcctat ... gcaagtttagTTTGCGGGTTCGATCGGAGCAGTCACTTGTGAGGTGGGCTACACCCCAACT
EST: gi|208179752|gb|GD978417.1|GD978417
EST:     TTTGGGGTGGTTATGCTGGAACTATTGACTGGTCGGAAGCCACTTGACAG                         TTTGCGGGTTCGATCGGAGCAGTCACTTGTGAGGTGGGCTACACCCCAACT
genomic: TTTGGGGTGGTTATGCTGGAACTATTGACTGGTCGGAAGCCACTTGACAGgtgagcctat ... gcaagtttagTTTGCGGGTTCGATCGGAGCAGTCACTTGTGAGGTGGGCTACACCCCAACT
EST: gi|7686127|gb|AW756775.1|AW756775
EST:     TTTGGGGTGGTTATGCTGGAACTATTGACTGGTCGGAAGCCACTTGACAG                         TTTGCGGGTTCGATCGGAGCAGTCACTTGTGAGGTGGGCTACACCCCAACT
genomic: TTTGGGGTGGTTATGCTGGAACTATTGACTGGTCGGAAGCCACTTGACAGgtgagcctat ... gcaagtttagTTTGCGGGTTCGATCGGAGCAGTCACTTGTGAGGTGGGCTACACCCCAACT
EST: gi|51343865|gb|CO984598.1|CO984598
EST:     TTTGGGGTGGTTATGCTGGAACTATTGACTGGTCGGAAGCCACTTGACAG                         TTTGCGGGTTCGATCGGAGCAGTCACTTGTGAGGTGGGCTACACCCCAACT
genomic: TTTGGGGTGGTTATGCTGGAACTATTGACTGGTCGGAAGCCACTTGACAGgtgagcctat ... gcaagtttagTTTGCGGGTTCGATCGGAGCAGTCACTTGTGAGGTGGGCTACACCCCAACT
EST: gi|4396176|gb|AI495173.1|AI495173
EST:     TTTGGGGTGGTTATGCTGGAACTATTGACTGGTCGGAAGCCACTTGACAG                         TTTGCGGGTTCGATCGGAGCAGTCACTTGTGAGGTGGGCTACACCCCAACT
genomic: TTTGGGGTGGTTATGCTGGAACTATTGACTGGTCGGAAGCCACTTGACAGgtgagcctat ... gcaagtttagTTTGCGGGTTCGATCGGAGCAGTCACTTGTGAGGTGGGCTACACCCCAACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatctttcttttctgtatggcttcttacattcatttgtaatttttgcaagtttagTTTGCGGGTTCGATCGGAGCAGTCACTTGTGAGGTGGGCTACACCCCAACTCCATGATATAGATGCCTTGGCCAAAATGGTTGATCCTACTTTGAACGGC
                     ttcttac  putative branch site (score: 2)
                                        tttttgc  putative PPT
                        ttacattcatttgtaa  TA-rich tract