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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttatatatctaaattaatttttaggtgtttgttccgtatatgaatgatcattgacttggggctctgggcttgtttttaatatctgtgaatatctctgtagCTGGCCAACACTGAAGAGTACATTGAGGGACAGTTTACTGGAAATTTGGGAGAGATTTTAATCAG

Basic information

species Glycine max
transcript GLYMA20G21250.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G21250.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv00s0220g00030.t01 (Vitis vinifera), 3'ss of exon 3
----gttatatatctaaattaatttttaggtgtttgttccgtatatgaatgatcattgacttggggctctgggcttgtttttaatatctgtgaatatct--ctgtagCTGGCCAACACTGAAGAGTACATTGAGGGACAGTTTACTGGAAATTTGGGAGAGATTTTAATCAG
     || |    | ||| |   |  || |  ||||| | || | ||  |    | |||      | |  | | |  ||  ||||   || |||| | |  ||| |||||||||||| |||||| |||||||| |||||||| ||||||||  | ||||||||||| |||||
tttgtttctgctaccaaactggctgctaagc-tttgt-cagtgtttgtgtatatactgat-----ggttggtgatgtttcataattcatgggaatctttttctgcagCTGGCCAACAGTGAAGAATACATTGATGGACAGTTCACTGGAAACCTTGGAGAGATTTTGATCAG
















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|192295086|gb|FG986805.1|FG986805
EST:     GCTATCTCGTTTCCGTTGATTCCTACATGAACTTGCAG                         CTGGCCAACACTGAAGAGTACATTGAGGGACAGTTTACTGGAAATTTGGGA
genomic: GCTATCTCGTTTCCGTTGATTCCTACATGAACTTGCAGgttatatatc ... atctctgtagCTGGCCAACACTGAAGAGTACATTGAGGGACAGTTTACTGGAAATTTGGGA
EST: gi|58022880|gb|CX709621.1|CX709621
EST:     GCTATCTCGTTTCCGTTGATTCCTACATGAACTTGCAG                         CTGGCCAACACTGAAGAGTACATTGAGGGACAGTTTACTGGAAATTTGGGA
genomic: GCTATCTCGTTTCCGTTGATTCCTACATGAACTTGCAGgttatatatc ... atctctgtagCTGGCCAACACTGAAGAGTACATTGAGGGACAGTTTACTGGAAATTTGGGA
EST: gi|10234556|gb|BE803444.1|BE803444
EST:     GCTATCTCGTTTCCGTTGATTCCTACATGAACTTGCAG                         CTGGCCAACACTGAAGAGTACATTGAGGGACAGTTTACTGGAAATTTGGGA
genomic: GCTATCTCGTTTCCGTTGATTCCTACATGAACTTGCAGgttatatatc ... atctctgtagCTGGCCAACACTGAAGAGTACATTGAGGGACAGTTTACTGGAAATTTGGGA
EST: gi|12689942|gb|BG156278.1|BG156278
EST:     GCTATCTCGTTTCCGTTGATTCCTACATGAACTTGCAG                         CTGGCCAACACTGAAGAGTACATTGAGGGACAGTTTACTGGAAATTTGGGA
genomic: GCTATCTCGTTTCCGTTGATTCCTACATGAACTTGCAGgttatatatc ... atctctgtagCTGGCCAACACTGAAGAGTACATTGAGGGACAGTTTACTGGAAATTTGGGA
EST: gi|58020838|gb|CX707580.1|CX707580
EST:     GCTATCTCGTTTCCGTTGATTCCTACATGAACTTGCAG                         CTGGCCAACACTGAAGAGTACATTGAGGTACAGTTTACTGGAAATTTGGGA
genomic: GCTATCTCGTTTCCGTTGATTCCTACATGAACTTGCAGgttatatatc ... atctctgtagCTGGCCAACACTGAAGAGTACATTGAGGGACAGTTTACTGGAAATTTGGGA
EST: gi|14990237|gb|BI315910.1|BI315910
EST:     GCTATCTCGTTTCCGTTGATTCCTACATGAACTTGCAG                         CTGGCCAACACTGAAGAGTACATTGAGGGACAGTTTACTGGAAATTTGGGA
genomic: GCTATCTCGTTTCCGTTGATTCCTACATGAACTTGCAGgttatatatc ... atctctgtagCTGGCCAACACTGAAGAGTACATTGAGGGACAGTTTACTGGAAATTTGGGA
EST: gi|7588010|gb|AW703815.1|AW703815
EST:     GCTATCTCGTTTCCGTTGATTCCTACATGAACTTGCAG                         CTGGCCAACACTGAAGAGTACATTGAGGGACAGTTTACTGGAAATTTGGGA
genomic: GCTATCTCGTTTCCGTTGATTCCTACATGAACTTGCAGgttatatatc ... atctctgtagCTGGCCAACACTGAAGAGTACATTGAGGGACAGTTTACTGGAAATTTGGGA
EST: gi|151400274|gb|EV270088.1|EV270088
EST:     GCTATCTCGTTTCCGTTGATTCCTACATGAACTTGCAG                         CTGGCCAACACTGAAGAGTACATTGAGGGACAGTTTACTGGAAATTTGGGA
genomic: GCTATCTCGTTTCCGTTGATTCCTACATGAACTTGCAGgttatatatc ... atctctgtagCTGGCCAACACTGAAGAGTACATTGAGGGACAGTTTACTGGAAATTTGGGA
EST: gi|17964468|gb|BM271203.1|BM271203
EST:     GCTATCTCGTTTCCGTTGATTCCTACATGAACTTGCAG                         CTGGCCAACACTGAAGAGTACATTGAGGGACAGTTTACTGGAAATTTGGGA
genomic: GCTATCTCGTTTCCGTTGATTCCTACATGAACTTGCAGgttatatatc ... atctctgtagCTGGCCAACACTGAAGAGTACATTGAGGGACAGTTTACTGGAAATTTGGGA
EST: gi|5677258|gb|AI938388.1|AI938388
EST:     GCTATCTCGTTTCCGTTGATTCCTACATGAACTTGCAG                         CTGGCCAACACTTAAGAGTACATTGAGGGACAGTTTACTGGAAATTTGGGA
genomic: GCTATCTCGTTTCCGTTGATTCCTACATGAACTTGCAGgttatatatc ... atctctgtagCTGGCCAACACTGAAGAGTACATTGAGGGACAGTTTACTGGAAATTTGGGA
EST: gi|31464033|gb|CD406061.1|CD406061
EST:     GCTATCTCGTTTCCGTTGATTCCTACATGAACTTGCAG                         CTGGCCAACACTGAAGAGTACATTGAGGGACAGTTTACTGGAAATTTGGGA
genomic: GCTATCTCGTTTCCGTTGATTCCTACATGAACTTGCAGgttatatatc ... atctctgtagCTGGCCAACACTGAAGAGTACATTGAGGGACAGTTTACTGGAAATTTGGGA
EST: gi|192308445|gb|FK002817.1|FK002817
EST:     GCTATCTCGTTTCCGTTGATTCCTACATGAACTTGCAG                         CTGGCCAACACTGAAGAGTACATTGAGGGACAGTTTACTGGAAATTTGGGA
genomic: GCTATCTCGTTTCCGTTGATTCCTACATGAACTTGCAGgttatatatc ... atctctgtagCTGGCCAACACTGAAGAGTACATTGAGGGACAGTTTACTGGAAATTTGGGA
EST: gi|31312516|gb|CD397719.1|CD397719
EST:     GCTATCTCGTTTCCGTTGATTCCTACATGAACTTGCAG                         CTGGCCAACACTGAAGAGTACATTGAGGGACAGTTTACTGGAAATTTGGGA
genomic: GCTATCTCGTTTCCGTTGATTCCTACATGAACTTGCAGgttatatatc ... atctctgtagCTGGCCAACACTGAAGAGTACATTGAGGGACAGTTTACTGGAAATTTGGGA
EST: gi|21600407|gb|BQ610738.1|BQ610738
EST:     GCTATCTCGTTTCCGTTGATTCCTACATGAACTTGCAG                         CTGGCCAACACTGAAGAGTACATTGAGGGACAGTTTACTGGAAATTTGGGA
genomic: GCTATCTCGTTTCCGTTGATTCCTACATGAACTTGCAGgttatatatc ... atctctgtagCTGGCCAACACTGAAGAGTACATTGAGGGACAGTTTACTGGAAATTTGGGA
EST: gi|254325850|gb|GR838731.1|GR838731
EST:     GCTATCTCGTTTCCGTTGATTCCTACATGAACTTGCAG                         CTGGCCAACACTGAAGAGTACATTGAGGGACAGTTTACTGGAAATTTGGGA
genomic: GCTATCTCGTTTCCGTTGATTCCTACATGAACTTGCAGgttatatatc ... atctctgtagCTGGCCAACACTGAAGAGTACATTGAGGGACAGTTTACTGGAAATTTGGGA
EST: gi|192327100|gb|FK015492.1|FK015492
EST:     GCTATCTCGTTTCCGTTGATTCCTACATGAACTTGCAG                         CTGGCCAACACTGAAGAGTACATTGAGGGACAGTTTACTGGAAATTTGGGA
genomic: GCTATCTCGTTTCCGTTGATTCCTACATGAACTTGCAGgttatatatc ... atctctgtagCTGGCCAACACTGAAGAGTACATTGAGGGACAGTTTACTGGAAATTTGGGA
EST: gi|207830383|gb|GD802397.1|GD802397
EST:     GCTATCTCGTTTCCGTTGATTCCTACATGAACTTGCAG                         CTGGCCAACACTGAAGAGTACA
genomic: GCTATCTCGTTTCCGTTGATTCCTACATGAACTTGCAGgttatatatc ... atctctgtagCTGGCCAACACTGAAGAGTACA
EST: gi|18692955|gb|BM521803.1|BM521803
EST:     GCTATCTCGTTTCCGTTGATTCCTACATGAACTTGCAG                         CTGGCCAACACTGAAGAGTACATTGAGGGACAGTTTACTGGAAATTTGGGA
genomic: GCTATCTCGTTTCCGTTGATTCCTACATGAACTTGCAGgttatatatc ... atctctgtagCTGGCCAACACTGAAGAGTACATTGAGGGACAGTTTACTGGAAATTTGGGA
EST: gi|254324568|gb|GR833993.1|GR833993
EST:     GCTATCTCGTTTCCGTTGATTCCTACATGAACTTGCAG                         CTGGCCAACACTGAAGAGTACATTGAGGGACAGTTTACTGGAAATTTGGGA
genomic: GCTATCTCGTTTCCGTTGATTCCTACATGAACTTGCAGgttatatatc ... atctctgtagCTGGCCAACACTGAAGAGTACATTGAGGGACAGTTTACTGGAAATTTGGGA
EST: gi|31469700|gb|CD411728.1|CD411728
EST:     GCTATCTCGTTTCCGTTGATTCCTACATGAACTTGCAG                         CTGGCCAACACTGAAGAGTACATTGAGGGACAGTTTACTGGAAATTTGGGA
genomic: GCTATCTCGTTTCCGTTGATTCCTACATGAACTTGCAGgttatatatc ... atctctgtagCTGGCCAACACTGAAGAGTACATTGAGGGACAGTTTACTGGAAATTTGGGA
EST: gi|208150579|gb|GD945108.1|GD945108
EST:     GCTATCTCGTTTCCGTTGATTCCTACATGAACTTGCAA                         CTGGCCAACACTGAAGAGTACATTGAGGGACAGTTTACTGGAAATTTGGGA
genomic: GCTATCTCGTTTCCGTTGATTCCTACATGAACTTGCAGgttatatatc ... atctctgtagCTGGCCAACACTGAAGAGTACATTGAGGGACAGTTTACTGGAAATTTGGGA
EST: gi|192310362|gb|FK002242.1|FK002242
EST:     GCTATCTCGTTTCCGTTGATTCCCACATGAACTTGCAG                         CTGGCCAACACTGAAGAGTACATTGAGGGACAGTTTACTGGAAATTTGGGA
genomic: GCTATCTCGTTTCCGTTGATTCCTACATGAACTTGCAGgttatatatc ... atctctgtagCTGGCCAACACTGAAGAGTACATTGAGGGACAGTTTACTGGAAATTTGGGA
EST: gi|192323685|gb|FK015991.1|FK015991
EST:     GCTATCTCGTTTCCGTTGATTCCTACATGAACTTGCAG                         CTGGCCAACACTGAAGAGTACATTGAGGGACAGTTTACTGGAAATTTGGGA
genomic: GCTATCTCGTTTCCGTTGATTCCTACATGAACTTGCAGgttatatatc ... atctctgtagCTGGCCAACACTGAAGAGTACATTGAGGGACAGTTTACTGGAAATTTGGGA
EST: gi|31473931|gb|CD415959.1|CD415959
EST:     GCTATCTCGTTTCCGTTGATTCCTACATGAACTTGCAG                         CTGGCCAACACTGAAGAGTACATTGAGGGACAGTTTACTGGAAATTTGGGA
genomic: GCTATCTCGTTTCCGTTGATTCCTACATGAACTTGCAGgttatatatc ... atctctgtagCTGGCCAACACTGAAGAGTACATTGAGGGACAGTTTACTGGAAATTTGGGA
EST: gi|151399653|gb|EV269524.1|EV269524
EST:     GCTATCTCGTTTCCGTTGATTCCTACATGAACTTGCAG                         CTGGCCAACACTGAAGAGTACATTGAGGGACAGTTTACTGGAAATTTGGGA
genomic: GCTATCTCGTTTCCGTTGATTCCTACATGAACTTGCAGgttatatatc ... atctctgtagCTGGCCAACACTGAAGAGTACATTGAGGGACAGTTTACTGGAAATTTGGGA
EST: gi|18848468|gb|BM567685.1|BM567685
EST:     GCTATCTCGTTTCCGTTGATTCCTACATGAACTTGCAG                         CTGGCCAACACTGAAGAGTACATTGAGGGACAGTTTACTGGAAATTTGGGA
genomic: GCTATCTCGTTTCCGTTGATTCCTACATGAACTTGCAGgttatatatc ... atctctgtagCTGGCCAACACTGAAGAGTACATTGAGGGACAGTTTACTGGAAATTTGGGA
EST: gi|192324854|gb|FK016070.1|FK016070
EST:     GCTATCTCGTTTCCGTTGATTCCTACATGAACTTGCAG                         CTGGCCAACACTGAAGAGTACATTGAGGGACAGTTTACTGGAAATTTGGGA
genomic: GCTATCTCGTTTCCGTTGATTCCTACATGAACTTGCAGgttatatatc ... atctctgtagCTGGCCAACACTGAAGAGTACATTGAGGGACAGTTTACTGGAAATTTGGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatcattgacttggggctctgggcttgtttttaatatctgtgaatatctctgtagCTGGCCAACACTGAAGAGTACATTGAGGGACAGTTTACTGGAAATTTGGGAGAGATTTTAATCAG
                            ttttaat  putative branch site (score: 3)
                                            tatctct  putative PPT
                        ttgtttttaatatct  TA-rich tract