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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtgttgtcagcctattgactacaagcaattatcttgaatcttgaaacttgtcgattgacatttatttaaatgcacattcattttactttcagGTCATGATGAGATTGTTTAGTCCACGAAAAACAACATTGTTGTTTGTCATACGCGATAAAACAAGG

Basic information

species Glycine max
transcript GLYMA07G01230.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G01230.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os01g39310.3 (Oryza sativa), 3'ss of exon 6
gtatgtgttgtcagc-ctattgactacaagcaattatcttgaatcttgaaacttgtcgattgacatttatttaaatgc----acattcattttacttt---cagGTCATGATGAGATTGTTTAGTCCACGAAAAACAACATTGTTGTTTGTCATACGCGATAAAACAAGG
||  || |||| ||  |||     |      | ||   |||| || |||  |||      ||  |  || |  |||         |   | | |   |    |||| |||||||||||||| |||||||| ||||| |||||||||||||| || || |||||| ||| |
gtcagt-ttgttagtgctacaatgtgggcttattttctttgattcctgattcttcagtggtggaagatactataatatcattgtgtctttgtcaacctgaatagGTTATGATGAGATTGTTCAGTCCACGTAAAACGACATTGTTGTTTGTTATTCGTGATAAATCAAAG

upper sequence: GLYMA07G01230.1 (Glycine max), 3'ss of exon 6
lower sequence: AC196426.3_FGT007 (Zea mays), 3'ss of exon 5
gtatgtgttgtcagcctattgactacaagcaattatcttgaatcttgaaacttgtcgattgacattta--tttaaatgcacattcattttactttcagGTCATGATGAGATTGTTTAGTCCACGAAAAACAACATTGTTGTTTGTCATACGCGATAAAACAAGG
                                                               |||||  ||   ||   | ||| |  ||  |  ||||||||||||| ||||| ||||| || |||||||||||||||||||| ||||| || ||| |||||
-------------------------------------------------------------gtatttaccttgggattttctttcttcatatgtgtagGTCATGATGAGGTTGTTCAGTCCTCGCAAAACAACATTGTTGTTTGTTATACGTGACAAATCAAGG

upper sequence: GLYMA07G01230.1 (Glycine max), 3'ss of exon 6
lower sequence: AT1G72960.1 (Arabidopsis thaliana), 3'ss of exon 6
gtatgtgttgtcagcctattgactacaagcaattatcttgaatcttgaaacttgtcgattgacatttatttaaatgcacattcattttactttcagGTCATGATGAGATTGTTTAGTCCACGAAAAACAACATTGTTGTTTGTCATACGCGATAAAACAAGG
|||| | || | |  ||   ||    ||  | |  |  || |||   ||| |  |   ||  | |   ||| |||         |     |  ||||| |||||| |||||||||||||||| ||||||||| || ||||||| ||||| ||||||||  ||
gtattttttttgatgctcaggaagttaaaaactctttgtgtatcacaaaaatattttcttaccctaagtttgaatctttggagttgggtttggcagGTGATGATGCGATTGTTTAGTCCACGTAAAACAACAATGCTGTTTGTAATACGAGATAAAACCCGG

upper sequence: GLYMA07G01230.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv09s0002g02200.t01 (Vitis vinifera), 3'ss of exon 6
gtatgtgttgtcagcctattgactacaagcaattatcttgaatcttgaaacttgtcgattgacatttatttaaatgcacattcattttactttcagGTCATGATGAGATTGTTTAGTCCACGAAAAACAACATTGTTGTTTGTCATACGCGATAAAACAAGG
               || || | | |   |||||||  |||||||  | |  | ||  |||   | ||  |  |||   ||    | | ||| ||||| |||||| ||||||||||||||||||||||||| ||| ||||||| || || ||||||||||||
-----------gtatctcttta-tgctgacaattattctgaatctcaagagct-tcagttg---tctaactttatg---atgttatatccttacagGTTATGATGCGATTGTTTAGTCCACGAAAAACAACTTTGATGTTTGTTATTCGTGATAAAACAAGG

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|209704689|gb|BW656667.1|BW656667
EST:     TTGGCCGTGAGCAAGCTGCAAATAAGCCACTTTTGAAAACTGTCTTTCAG                         GTCATGATGAGATTGTTTAGTCCACGAAAAACAACATTGTTGTTTGTCATA
genomic: TTGGCCGTGAGCAAGCTGCAAATAAGCCACTTTTGAAAACTGTCTTTCAGgtatgtgttg ... ttactttcagGTCATGATGAGATTGTTTAGTCCACGAAAAACAACATTGTTGTTTGTCATA
EST: gi|213597827|gb|DB962180.1|DB962180
EST:     TTGGCCGTGAGCAAGCTGCAAATAAGCCACTTTTGNAAACTGTCTTTCAG                         GTCATGATGAGATTGTTTAGTCCACGAAAAACAACATTGTTGTTTGTCATA
genomic: TTGGCCGTGAGCAAGCTGCAAATAAGCCACTTTTGAAAACTGTCTTTCAGgtatgtgttg ... ttactttcagGTCATGATGAGATTGTTTAGTCCACGAAAAACAACATTGTTGTTTGTCATA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atcttgaaacttgtcgattgacatttatttaaatgcacattcattttactttcagGTCATGATGAGATTGTTTAGTCCACGAAAAACAACATTGTTGTTTGTCATACGCGATAAAACAAGG
               gattgac  putative branch site (score: 3)
                                       ttcattttactttc  putative PPT
                attgacatttatttaa  TA-rich tract