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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatttcctcttggtgcattctatgggtatattatgcttctttttaagtaatttttctttgaatgatggaagtttcattgtttataaatattagttagtaaatttgatgttaatttatctaatttttatattatgtttcttgtttggccagTGGAAATTTGCCTTTTTTTCATTAGGGCGTCCTGAATATCTTCAGGATTCTGACATTGTATCCAGTCGTTTTCAG

Basic information

species Glycine max
transcript GLYMA14G04890.1
intron # 29
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA14G04890.1 (Glycine max), 3'ss of exon 29
lower sequence: Vv06s0009g00960.t01 (Vitis vinifera), 3'ss of exon 29
-------------------------gtatttcctcttggtgcattcta-tgggtatattatgcttc----tttttaagtaatttttctttga-atgatggaag------------tttcattgtttataaatattagttagtaaatttgatgttaattt-----atctaatttt-tatattatgtttcttgtttggccagTGGAAATTTGCCTTTTTTTCATTAGGGCGTCCTGAATATCTTCAGGATTCTGACATTGTATCCAGTCGTTTTCAG
                           || | ||  |  || |  ||| |   || ||    |       |   ||  | || |  ||     ||| ||| |             ||||||| |||  | |   |  || | || | ||| || | |||     |||||  ||| | | || | |||  | |||  ||||||||  ||||||||| ||||| |||| || || || || ||||| || ||||||||||| |||||||||||||||
gtatattttccttatgcatccactgtcatattcttctaatgaacactacttattacatggcaccataaaatcagtagatgatatgactacaccatggtggtataaacctttttcttttcattttttcaagaagcttctt-gcaattctgacgtcattttgagcaatctacctttgtttgttgtctttact-ttttcccagTGGAGGTTTGCCTTTCTTTCACTAGGTCGCCCAGAGTACCTTCAAGACTCTGACATTGTCTCCAGTCGTTTTCAG
















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|21677323|gb|BQ629674.1|BQ629674
EST:     AAGTAAGAATACAGAAGAAACTTCAAGTTCCTGATGATGAGTTTGTCAAG                         TGGAAATTTGCCNNNNNNNCATTAGGGCGTCCTGAATATCTTCAGGATTCT
genomic: AAGTAAGAATACAGAAGAAACTTCAAGTTCCTGATGATGAGTTTGTCAAGgtatttcctc ... gtttggccagTGGAAATTTGCCTTTTTTTCATTAGGGCGTCCTGAATATCTTCAGGATTCT
EST: gi|208053882|gb|GD854019.1|GD854019
EST:     AAGTAAGAATACAGAAGAAACTTCAAGTTCCTGATGATGAGTTTGTCAAG                         TGGAAATTTGCC
genomic: AAGTAAGAATACAGAAGAAACTTCAAGTTCCTGATGATGAGTTTGTCAAGgtatttcctc ... gtttggccagTGGAAATTTGCC
EST: gi|27427525|gb|CA939045.1|CA939045
EST:     GAATACAGAAGAAACTTCAAGTTCCTGATGATGAGTTTGTCAAG                         TGGAAATTTGCCNNNNNNNCATTAGGGCGTCCTGAATATCTTCAGGATTCT
genomic: GAATACAGAAGAAACTTCAAGTTCCTGATGATGAGTTTGTCAAGgtatttcctc ... gtttggccagTGGAAATTTGCCTTTTTTTCATTAGGGCGTCCTGAATATCTTCAGGATTCT
EST: gi|5770494|gb|AI973668.1|AI973668
EST:     AAGTAAGAATACAGAAGAAACTTCAAGTTCCTGATGATGAGTTTGTCAAG                         TGGAAATTTGCCNNNNNNNCATTAGGGCGTCCTGAATATCTTCAGGATTCT
genomic: AAGTAAGAATACAGAAGAAACTTCAAGTTCCTGATGATGAGTTTGTCAAGgtatttcctc ... gtttggccagTGGAAATTTGCCTTTTTTTCATTAGGGCGTCCTGAATATCTTCAGGATTCT
EST: gi|9565141|gb|BE474641.1|BE474641
EST:     AAGTAAGAATACAGAAGAAACTTCAAGTTCCTGATGATGAGTTTGTCAAG                         TGGAAATTTGCCNNNNNNNCATTAGGGCGTCCTGAATATCTTCAGGATTCT
genomic: AAGTAAGAATACAGAAGAAACTTCAAGTTCCTGATGATGAGTTTGTCAAGgtatttcctc ... gtttggccagTGGAAATTTGCCTTTTTTTCATTAGGGCGTCCTGAATATCTTCAGGATTCT
EST: gi|58020429|gb|CX707171.1|CX707171
EST:     AAGTAAGAATACAGAAGAAACTTCAAGTTCCTGATGATGAGTTTGTCAAG                         TGGAAATTTGCCNNNNNNNCATTAGGGCGTCCTGAATATCTTCAGGATTCT
genomic: AAGTAAGAATACAGAAGAAACTTCAAGTTCCTGATGATGAGTTTGTCAAGgtatttcctc ... gtttggccagTGGAAATTTGCCTTTTTTTCATTAGGGCGTCCTGAATATCTTCAGGATTCT
EST: gi|22523119|gb|BU081930.1|BU081930
EST:     AAGTAAGAATACAGAAGAAACTTCAAGTTCCTGATGATGAGTTTGTCAAG                         TGGAAATTTGCCNNNNNNNCATTAGGGCGTCCTGAATATCTTCAGGATTCT
genomic: AAGTAAGAATACAGAAGAAACTTCAAGTTCCTGATGATGAGTTTGTCAAGgtatttcctc ... gtttggccagTGGAAATTTGCCTTTTTTTCATTAGGGCGTCCTGAATATCTTCAGGATTCT
EST: gi|7283882|gb|AW596484.1|AW596484
EST:     AAGTAAGAATACAGAAGAAACTTCAAGTTCCTG-TGATGAGTTTGTCAAG                         TGGAAATTTGCCNNNNNNNCATTAGGGCGTCCTGAATATCTTCAGGATTCT
genomic: AAGTAAGAATACAGAAGAAACTTCAAGTTCCTGATGATGAGTTTGTCAAGgtatttcctc ... gtttggccagTGGAAATTTGCCTTTTTTTCATTAGGGCGTCCTGAATATCTTCAGGATTCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agtaaatttgatgttaatttatctaatttttatattatgtttcttgtttggccagTGGAAATTTGCCTTTTTTTCATTAGGGCGTCCTGAATATCTTCAGGATTCTGACATTGTATCCAGTCGTTTTCAG
                    atctaat  putative branch site (score: 3)
                                       tttcttgttt  putative PPT
     atttgatgttaattta  TA-rich tract